Tag: shell

[slurm-users] slurm and singularity

I’m trying to setup the capability where a user can execute: $: sbatch <parameters> script_to_run.sh and the end result is that a job is created on a node, and that job will execute “singularity exec <path to container> script_to_run.sh” Also, that they could execute: $:…

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BWA-mem not working with Snakemake + singularity

Hi everyone, good morning. I’m falling into an issue using bwa mem inside Snakemake + Singularity, which I’ve investigated and can’t find a way to override. BWA works fine outside singularity. The code is: import os import snakemake.io import glob configfile: “../config.yaml” (SAMPLES,) = glob_wildcards(“/home/ubuntu/samples/{sample}_R1.fastq.gz”) # generate dag.svg diagram #…

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2. QC Raw Data Using FastQC

2. QC Raw Data Using FastQC – HackMD # 2. QC Raw Data Using FastQC ###### tags: `2. Main Steps` `tutorials` `fastQC` > Program required: fastqc ## Setup 1. Once you have retrieved the raw data using `sftp`, you should quality check all the raw `.fastq` files. Here, we use…

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lammps-20220623-3.fc36 – Fedora Packages

lammps-20220623-3.fc36 – Fedora Packages ↵ Return to the main page of lammpsView buildSearch for updates Package Info (Data from x86_64 build) Changelog Dependencies Provides Files Changelog Date Author Change 2022-09-27 Mamoru TASAKA <mtasaka at fedoraproject dot org> – 20220623-3 – Rebuild for kokkos 3.7 2022-07-21 Fedora Release Engineering <releng at…

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linux – Check if folder contains files with extensions and write directories into categories

unary operator expected is because [ and * (in your *fastq.gz) work independently. [ is not shell syntax. [ is a regular command (a builtin in Bash, but still a command) and ] is its last argument, a mandatory one. Anything in between is an argument too. The shell expands…

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[Bug 2156243] Review Request: python-scikit-build

bugzilla.redhat.com/show_bug.cgi?id=2156243 Jasmin <jasmin.marwad@xxxxxxxxx> changed: What |Removed |Added —————————————————————————- CC| |jasmin.marwad@xxxxxxxxx — Comment #2 from Jasmin <jasmin.marwad@xxxxxxxxx> — Package Review ============== Legend: [x] = Pass, [!] = Fail, [-] = Not applicable, [?] = Not evaluated [ ] = Manual review needed Issues: ======= – Dist tag is present. ===== MUST…

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linux – How to get a file with the number of reads for several fastq.gz files?

zcat, like cat, works with multiple file names as arguments, up to the argument limit (on Linux, that’s usually at least a thousand), so counting multiple lines in multiple files still works, assuming the fastq files are formatted in the expected way with only four lines per record: zcat filename_R1.fastq.gz…

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Researchers map brain cell changes in Alzheimer’s disease | MIT News

The following press release was issued today by the Broad Institute of MIT and Harvard. A common sign of Alzheimer’s disease is the excessive buildup of two types of protein in the brain: tangles of tau proteins that accumulate inside cells, and amyloid-β proteins that form plaques outside the cells….

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Job Application for Data Scientist, Bioinformatics at Tome Bio

Tome Biosciences is the programmable gene insertion company. Using CRISPR, our technologies allow us to insert any genetic sequence of any size at any location into any genome. We are writing the final chapter in genomic medicines, delivering cures to patients through cell and genome engineering. Data Scientist, Bioinformatics  …

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Senior Scientist, Bioinformatics / Repertoire Analysis & Predictions

Working with UsChallenging. Meaningful. Life-changing. Those aren’t words that are usually associated with a job. But working at Bristol Myers Squibb is anything but usual. Here, uniquely interesting work happens every day, in every department. From optimizing a production line to the latest breakthroughs in cell therapy, this is work…

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sagemath-data-graphs-9.6-7.fc37 – Fedora Packages

sagemath-data-graphs-9.6-7.fc37 – Fedora Packages ↵ Return to the main page of sagemath-data-graphsView buildSearch for updates Package Info Changelog Dependencies Provides Files Changelog Date Author Change 2022-12-20 Jerry James <loganjerry at gmail dot com> – 9.6-7 – Fix failure to install (bz 2154932) – Fix failure to find nauty binaries (bz…

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Principal Bioinformatics Software Engineer, NGS Data Pipeline – Roche

The Position Roche Sequencing is not only changing science, but we are changing lives. Our software teams are laying the groundwork for the future by developing powerful bioinformatics algorithms, data analysis tools, and software/systems infrastructures so researchers and clinicians can make better health decisions faster. The path to curing cancer…

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Bioinformatics Data Scientist | Apex Systems

Job#: 1326086 Job Description: Bioinformatics Data Scientist 1326086 Location: Watertown, MA (Hybrid)Science/ Focus: Immunology – Cell TherapyTherapeutic Area(s): Immunology Job Overview: Our client is seeking a talented Bioinformatics Data Scientist to join their growing team and play a crucial role in the expansion of their platform. In this role, you will…

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Bioinformatics Research Scientist Job in Pennsylvania

UPCI Basic Research Administration – Pennsylvania-Pittsburgh – (23000703) A Bioinformatics Research Scientist position is available in the laboratory of Dr. Yu-Chiao Chiu at the UPMC Hillman Cancer Center at the University of Pittsburgh School of Medicine. We are seeking a highly motivated candidate with strong computational skills in…

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Bioinformatics Analyst (Remote) – Rangam Consultants Inc.

Job Title: Bioinformatics Analyst Length of the assignment: 6 mo – 12 months This is a remote position. PhD or Masters preferred. The client is seeking a highly motivated computational biologist/bioinformatics scientist to play an integral role in a multi-disciplinary team focused on developing new therapies for the treatment of…

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EMDB < EMD-28585

Field: Choose…EMDB IDTitleAuthorORCIDEM methodCurrent statusDeposition dateRelease dateDeposition siteLast processing siteFitted modelsRaw dataResolutionResolution methodSoftwareLigand nameComplex nameDomain nameDrug nameGO term nameInterPro term nameChEBI term nameExternal reference Publication titlePublication yearJournalPublication author Sample typeSample nameOrganismOrganism (NCBI code)StrainOrganTissueCellOrganelleCellular LocationE.C. numberMolecular Weight methodMolecular Weight (Da)Recombinant ExpressionRecombinant organismRecombinant organism (NCBI code)Recombinant strainRecombinant expression cellRecombinant expression plasmidDNA/RNA classificationDNA/RNA…

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nVidia 525 + Cuda 11.8 + Python 3.10 + pyTorch GPU Docker image

It is a base environment for torch with GPU support (including 3090Ti!) that can be used for working with AI models. This image requires nvidia-driver-525 and nvidia-docker2 installed on host. It needs 30GB on disk! Dockerfile FROM nvidia/cuda:11.8.0-devel-ubuntu22.04 ENV PYTHONUNBUFFERED=1 # SYSTEM RUN apt-get update –yes –quiet && DEBIAN_FRONTEND=noninteractive apt-get…

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EMDB < EMD-13594

Field: Choose…EMDB IDTitleAuthorORCIDEM methodCurrent statusDeposition dateRelease dateDeposition siteLast processing siteFitted modelsRaw dataResolutionResolution methodSoftwareLigand nameComplex nameDomain nameDrug nameGO term nameInterPro term nameChEBI term nameExternal reference Publication titlePublication yearJournalPublication author Sample typeSample nameOrganismOrganism (NCBI code)StrainOrganTissueCellOrganelleCellular LocationE.C. numberMolecular Weight methodMolecular Weight (Da)Recombinant ExpressionRecombinant organismRecombinant organism (NCBI code)Recombinant strainRecombinant expression cellRecombinant expression plasmidDNA/RNA classificationDNA/RNA…

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Mugsy not working

Mugsy not working 0 hello, I have installed mugsy using bioconda and it was installed without any error. Now I can see mugsy in my enviroment but whenever I do source activate mugsy it says “-bash: activate: No such file or directory”, but when I do conda activate mugsy, it…

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Bioinformatics Analyst – Tellus Solutions

Tellus Solutions is in partnership with a committed biopharmaceutical company in North Chicago focused on providing innovative therapies. Your technical expertise as a Bioinformatics analyst in the area of using R to do basic data analysis (processing, plotting), RNA-Seq alignment experience will contribute to our client’s innovative therapies which will…

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Epidemiology of Clostridioides difficile infection

Introduction Clostridioides difficile (C. difficile) is an anaerobic, gram-positive, spore-forming bacillus and important pathogen of antimicrobial-associated diarrhea and nosocomial diarrhea in humans.1 Clostridioides difficile infection (CDI) can progress from self-resolving diarrhea to colitis, life-threatening pseudomembranous colitis and toxic megacolon, and death.2,3 CDI is a toxin-mediated disease, and the major virulence…

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MEDGENOME hiring Senior Bioinformatics Scientist in Bengaluru, Karnataka, India

MedGenome is looking to hire a Senior Bioinformatics Scientist who is primarily responsible for developing and maintaining analysis tool using data science technologies. Job Title: Senior Bioinformatics Scientist Job Location: Electronic City, Bengaluru (On-Site) Job Type: Fulltime Skills and Experience Required: 5+ years of experience working in python in Biotechnology…

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Higher Scientist-Bioinformatician at The Medicines And Healthcare Products Regulatory Agency

Location: South Mimms, Hertfordshire/Hybrid The MHRA is transforming. Through enabling innovation, making the right judgements of the benefits and risks of medical products, and forging the right partnerships in the UK and internationally, it aims to deliver world class regulation and improved outcomes for UK patients. We are currently looking…

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[slurm-users] srun with &&, |, and > oh my!

Try first with small things like shell scripts you write which would tell you where the thing is running (e.g. by using hostname). Keep in mind that what would happen will most importantly depend on the shell. For example, if you use “sudo” you know that using wildcards is tricky,…

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Postdoc position in circadian biology and bioinformatics (reposting) – University of Copenhagen – job portal

Job Portal Novo Nordisk Foundation Center for Basic Metabolic Research Faculty of Health and Medical Sciences University of Copenhagen   We are seeking a highly motivated and dynamic researcher with expertise in analysis and interpretation of high-throughput sequencing (transcriptomics, epigenomics etc.) and mass spectrometry (proteomics, metabolomics etc.) to work in…

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Geography shapes the genomics and antimicrobial resistance of Salmonella enterica Serovar Enteritidis isolated from humans

Sample dataset description To reconstruct the phylogeny of S. Enteritidis human isolates in a global context, 159 genomes of S. Enteritidis from different countries were selected and downloaded from our initial query of public data in addition to the 16 S. Enteritidis genomes our laboratory sequenced in the study. In…

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Alphafold in Linux – HHblits error

When I try to run alphafold on a cluster from the ubuntu shell, I am getting this error in HHBlits: RuntimeError: HHblits failed stdout: stderr: 17:40:03.749 ERROR: Could find neither hhm_db nor a3m_db! Does anybody know why this might be happening? I assumed it would be an issue with the…

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Bioinformatics Specialist in New York, NY for Memorial Sloan-Kettering Cancer Center

Details Posted: 22-Jan-23 Location: New York, New York Type: Full-time Salary: Open Categories: Academic/Faculty Pay Range $63,700.00-$98,700.00 Company Overview At Memorial Sloan Kettering (MSK), we’re not only changing the way we treat cancer, but also the way the world thinks about it. By working together and pushing forward with innovation…

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RStudio Launcher Plugin SDK: rstudio::launcher_plugins::system::User Class Reference

Public Member Functions   User (bool in_isEmpty=false)   Constructor. More…     User (const User &in_other)   Copy constructor. More…     User (User &&in_other) noexcept=default   Move constructor. More…   User &  operator= (const User &in_other)   Overloaded assignment operator. More…   User &  operator= (User &&in_other) noexcept=default  …

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Postdoctoral Scholar – Bioinformatics/Biomedical Data Science Job in Nevada, Molecular Biology Career, Full Time Jobs in University of Nevada, Reno

Postdoctoral Scholar – Bioinformatics/Biomedical Data Science R0127900 University of Nevada, Reno – Main Campus The University of Nevada, Reno (UNR) appreciates your interest in employment at our growing institution. We want your application process to go smoothly and quickly. Final applications must be submitted prior to the close of…

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Software Developer in Open Targets at European Molecular Biology Laboratory (EMBL)

Contract Duration-Length of Time (years/months): 3 years Advertised Grade-Grading: Grade 5 (monthly salary starting at £2,882 after tax) or Grade 6 (monthly salary starting at £3,224) + other paid benefits Contract Duration-Is this renewable to 9 years?: No  About the team/job We are looking for a Software Developer to join…

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Profiling the BLAST bioinformatics application for load balancing on high-performance computing clusters

Background: The Basic Local Alignment Search Tool (BLAST) is a suite of commonly used algorithms for identifying matches between biological sequences. The user supplies a database file and query file of sequences for BLAST to find identical sequences between the two. The typical millions of database and query sequences make…

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Nearest neighbours information at simulation time – LAMMPS General Discussion

Hi all, A short motivation for my question (can be skipped)I am currently doing a project where I stretch a graphene sheet and measure frictional properties for various cut patterns applied to the sheet. A main concern is therefore that the sheet can get to porous and rupture under a…

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Measuring plant resistance

Teilen:  12.12.2022 13:08 Measuring plant resistance The scientists at the Leibniz Institute of Plant Biochemistry (IPB) are set to launch a new interdisciplinary research program in January 2023, which will consolidate existing capacities in high-performance analytical instruments with expertise in the fields of bioorganic chemistry, metabolomics, and chemo- and bioinformatics….

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Bioinformatics Software QA Engineer (Remote Option) at Genentech

The Position Genentech, a member of the Roche group and founder of the biotechnology industry, is dedicated to pursuing groundbreaking science to discover and develop medicines for people with serious and life-threatening diseases. To solve the world’s most complex health challenges, we ask bigger questions that challenge our industry and…

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EMDB < EMD-20433

Field: Choose…EMDB IDTitleAuthorORCIDEM methodCurrent statusDeposition dateRelease dateDeposition siteLast processing siteFitted modelsRaw dataResolutionResolution methodSoftwareLigand nameComplex nameDomain nameDrug nameGO term nameInterPro term nameChEBI term nameExternal reference Publication titlePublication yearJournalPublication author Sample typeSample nameOrganismOrganism (NCBI code)StrainOrganTissueCellOrganelleCellular LocationE.C. numberMolecular Weight methodMolecular Weight (Da)Recombinant ExpressionRecombinant organismRecombinant organism (NCBI code)Recombinant strainRecombinant expression cellRecombinant expression plasmidDNA/RNA classificationDNA/RNA…

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Post-doc in Computer Science / Bioinformatics – University of Bern – job portal

Post-doc in Computer Science / Bioinformatics We are seeking to hire a person with a PhD in bioinformatics, computational biology, data science, computer science, statistics or applied mathematics. Preferably the candidate should have experience of using large data sets to undertake projects with a particular focus on the integration of…

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A strategy to thermally stabilize microneedle vaccine technology

Credit: Thanh Nguyen/University of Connecticut Researchers in the Department of Biomedical Engineering—a shared department between the UConn Schools of Dental Medicine, Medicine, and Engineering—unlocked a new strategy using sugar molecules to thermally stabilize their existing microneedle vaccine technology, eliminating the need for cold-chain storage. Associate Professor Thanh Duc Nguyen from…

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Integrated taxonomy reveals new threatened freshwater mussels (Bivalvia: Hyriidae: Westralunio) from southwestern Australia

Genetic variation The best fitting substitution models for COI codons 1–3 were identified as TN + F + G4, F81 + F + I, and TN + F, respectively. The maximum likelihood (ML) and Bayesian inference (BI) trees showed similar topologies of the main nodes, although the BI tree displayed greater resolution of the ingroup branches (Fig. 1). Furthermore, the BI…

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Bug#1024835: python-pauvre: ftbfs with biopython 1.80

Source: python-pauvre Version: 0.2.3-1 Severity: important Tags: ftbfs Dear Maintainer, python-pauvre fails its build time test suite when built against biopython 1.80 in experimental but builds successfully against biopython 1.79. The relevant part of the log in case of failure shows: I: pybuild base:240: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.10_pauvre/build; python3.10 -m unittest discover -v test_normal_plotting_scenario (pauvre.tests.test_synplot.libSeq_test_case) This…

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Bioinformatics Analyst II – Epigenetics & 3D Genomics Job in Texas

Summary The lab of Dr. Kyle Eagen (www.eagenlab.org) at Baylor College of Medicine focuses on elucidating how DNA folds within cells and how DNA misfolding relates to human disease. Baylor College of Medicine, one of the top ranked medical schools in the country, is well known for its exceptional,…

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Bioinformatics Analyst Jobs

We have an exciting contract opportunity for a Bioinformatics analyst to support a collaboration between the Biologics Science and Technology group and Genomics Research Center, in which we are using genomics tools to optimize the development of better Chinese Hamster Ovary (CHO) cells for biologics manufacturing. The ideal candidate will…

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Bioinformatics Analyst II (Remote) Position In North Chicago, IL

Job Description To discuss more about this job opportunity, please reach out to Chitrank Rastogi (LinkedIn URL – www.linkedin.com/in/chitrank-rastogi-55119a102/), email your updated resume at chitrank.rastogi@collabera.com or give me a call at (425) 523-1648. Thank you! Job Description:Job Roles & Responsibilities: We have an exciting contract opportunity for a Bioinformatics analyst…

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Bioinformatics Analyst-Entry Level Position In North Chicago, IL

Description du poste Bioinformatics Analyst Supports a collaboration between the Biologics Science and Technology group and Genomics Research Center, in which we are using genomics tools to optimize the development of better Chinese Hamster Ovary (CHO) cells for biologics manufacturing. The ideal candidate will have broad experience in genomics data…

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Bioinformatics Analyst III Position In South San Francisco, CA

Job Description To discuss more about this job opportunity, please reach out to Chitrank Rastogi (LinkedIn URL – www.linkedin.com/in/chitrank-rastogi-55119a102/), email your updated resume at chitrank.rastogi@collabera.com or give me a call at (425) 523-1648. Thank you! Job Description:Job Roles & Responsibilities: The Genomic Research Center Computational Oncology group (GRC-CO) is seeking…

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Sbatch How Submitted Location Using Jobid With Code Examples

Sbatch How Submitted Location Using Jobid With Code Examples With this piece, we’ll take a look at a few different examples of Sbatch How Submitted Location Using Jobid issues in the computer language. scontrol show job your_job_id_234533 We learned how to solve the Sbatch How Submitted Location Using Jobid by…

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Impact of host age on viral and bacterial communities in a waterbird population

Woolhouse MEJ, Gowtage-Sequeria S. Host range and emerging and reemerging pathogens. Emerg Infect Dis. 2005;11:1842–7. Article  PubMed  PubMed Central  Google Scholar  Allen T, Murray KA, Zambrana-Torrelio C, Morse SS, Rondinini C, Di Marco M, et al. Global hotspots and correlates of emerging zoonotic diseases. Nat Commun. 2017;8:1–10. Article  CAS  Google…

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Postdoc position in circadian biology and bioinformatics

We are seeking a highly motivated and dynamic researcher with expertise in analysis and interpretation of high-throughput sequencing (transcriptomics, epigenomics etc.) and mass spectrometry (proteomics, metabolomics etc.) to work in the Zierath Group in collaboration with Barrès Group and Deshmukh Group. The position is a 3-year position to start March…

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How to select the first layer of water close to a nanotube – LAMMPS General Discussion

Dear LAMMPS Users I am trying to calculate some properties of the first hydration shells of a metal oxide nanotube, however I am not sure how to use the “region” and “group” commands to be able to select the first layer of water that is close to the tube and…

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Bioinformatic Analyst job at Tellus Solutions in Remote

Job description Tellus Solutions is in partnership with a committed biopharmaceutical company in North Chicago focused on providing innovative therapies. Your technical expertise as a Bioinformatics analyst in the area of using R to do basic data analysis (processing, plotting), RNA-Seq alignment experience will contribute to our client’s innovative therapies…

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Senior Development Lead – Java OpenAPI RESTful API – Page Group Hong Kong

Leadership role:- You will be responsible for supporting the system design and conducting the development to deliver the business solution for the project according to the requirements and engineering standards. He/she will perform system analysis, application development, unit testing, trouble-shooting, and operations support work. Client Details We are an forward…

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New Best Practices — Visual Studio Magazine

The Data Science Lab Binary Classification Using PyTorch, Part 1: New Best Practices Because machine learning with deep neural techniques has advanced quickly, our resident data scientist updates binary classification techniques and best practices based on experience over the past two years. By James McCaffrey 10/05/2022 A binary…

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metaWRAP Alternatives and Reviews (Sep 2022)

Stats Basic metaWRAP repo stats Last Commit about 1 month ago bxlab/metaWRAP is an open source project licensed under MIT License which is an OSI approved license. Truly a developer’s best friend Scout APM is great for developers who want to find and fix performance issues in their applications. With…

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‘info jupyterhub’ displays the manpage although it suggests ‘info’ to get the full doc

Package: jupyterhub Version: 2.0.0+ds1-2 Severity: normal X-Debbugs-Cc: gkni…@australdx.fr Dear Maintainer, ‘man jupyterhub’ ends with: > The full documentation for jupyterhub is maintained as a Texinfo manual. If the info and jupyterhub programs are properly installed at your site, the command > info jupyterhub > should give you access to the complete manual. although…

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ACENET Basics: Job Scheduling with Slurm Tickets, Fri, 23 Sep 2022 at 10:00 AM

This session teaches participants how to use the Digital Research Alliance of Canada’s queuing environment on the national systems, using the job scheduler Slurm. Learn how the scheduler works, how it allocates jobs, what are reasonable requests to minimize wait time, how to make the best use of the resources…

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Bioinformatics job in Riyadh

Riyadh, Saudi Arabia Center for Genomic Medicine Full time The Center for Genomic Medicine (CGM) plans to expand its IT and bioinformatics teams with experts who will be responsible for maintaining the bioinformatics IT infrastructure and developing, maintaining, and execution of computational pipelines…

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Eyam Vaccines and Immunotherapeutics hiring Bioinformatician in Vancouver, British Columbia, Canada

Postdoctoral Position at Eyam Vaccines and Immunotherapeutics – Bioinformatician  Eyam Vaccines and Immunotherapeutics (Eyam) is seeking an outstanding Bioinformatician. This is a unique opportunity to experience collaborative research with leading industry and academic experts. Under the direction of the Director of Bioinformatics and the Chief Scientific Officer, Dr. Paolo Ribeca…

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[Internship] Bioinformatics Intern, Fall 2022 at Harmonic Discovery (United States)

About Us Based in NYC, Harmonic Discovery is a biotechnology company leveraging biology, medicinal chemistry, and machine learning to create a new generation of therapeutics for oncology and autoimmune disorders. We look for passionate innovators, radical thinkers, and collaborative builders. It’s time to integrate our understanding of biology and chemistry…

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Bioinformatics Analyst in Minneapolis, MN for University of Minnesota, Twin Cities

Details Posted: 13-Aug-22 Location: Minneapolis, Minnesota Salary: 43944.32 – 123022.07 Categories: Research Support – Laboratory/Non-Laboratory Staff/Administrative Additional Information: 2 openings available. The Research Informatics Solutions (RIS) group within the University of Minnesota Supercomputing Institute (MSI) is hiring two full-time Bioinformatics Analysts to support research at the University of Minnesota. Analysts…

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Research Biologist Computational Bioinformatics Geneticist Research Associate Job in WORLDWIDE

Summary The Agricultural Research Service (ARS) is the United States Department of Agriculture’s chief scientific research agency and one of the world’s premiere scientific organizations. ARS Postdoctoral Research Associates are hired to supplement a lead scientist’s research on agricultural problems of high national priority affecting American agriculture. This opportunity is…

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Cornell Virtual Workshop: Execution: idev (at TACC)

TACC also offers their idev command (for interactive development) as a convenient way to initiate interactive work on their compute nodes, via Slurm. It works very much like srun and even takes many of the same options. But by making a few assumptions, idev shortens the path for you…

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Postdoc in Computational method development for precision medicine in

Area of research: Scientific / postdoctoral posts Job description: : Discover personalized medical solutions for environmentally triggered diseases to promote a healthier society in a rapidly changing world. The Institute of Computational Biology (ICB) is globally recognised for its innovations in data analysis and modelling of biological systems and diseases,…

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Gene Therapy Delivered via High-Capacity Baculovirus

Some of the newest and most exciting gene therapy technologies share a problem: They’re too bulky. They rely on multiple functional DNA and protein elements that must reach target cells all at the same time, even though they have trouble fitting into the usual delivery vehicles, which include vector systems…

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Bioinformatic jobs in Marina South City Park – July 2022

Bayes–Central Singapore The ideal candidate will have an established track record in the field of structural biology, molecular dynamics and possess a broad base… National Cancer Centre Singapore–Outram We are recruiting Bioinformatics Specialists and Postdoctoral Fellows at the Cancer Discovery Hub, National Cancer Centre Singapore. You… $1,000 – $1,000 per…

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Sr. Bioinformatics-Clinical Database Developer – CBL Path, Inc

Job Functions, Duties, Responsibilities and Position Qualifications: POSITION TITLE:Senior Bioinformatics-Clinical Database Developer STANDARDIZED JOB TITLE: Database Development, Web Application Development, and Clinical Analytics EXEMPT STATUS:  Exempt POSITION SUMMARY: Sr. Database Developer works with cross-functional groups & Medical Leadership for developing a databases for a clinical assays. The candidate is expected…

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‘Self-boosting’ vaccines could soon replace the need for multiple COVID shots

CAMBRIDGE, Mass. — A one-jab, self-boosting vaccine that provides patients with several doses at different times is currently under development. Scientists from the Massachusetts Institute of Technology say the one-shot would provide multiple stages of vaccination thanks to microparticles that release payloads at different intervals. These microparticles resemble tiny coffee…

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How To Download Geo Data? Update New

Bioinformatics 101 | How to download RNA-Seq data from NCBI GEO | Bioinformatics for beginners Bioinformatics 101 | How to download RNA-Seq data from NCBI GEO | Bioinformatics for beginners Images related to the topicBioinformatics 101 | How to download RNA-Seq data from NCBI GEO | Bioinformatics for beginners Bioinformatics…

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Dimorphic life cycle through transverse division in burrowing hard coral Deltocyathoides orientalis

Transverse division of Deltocyathoides orientalis In this study, we conducted a detailed morphological analysis of an undescribed species and D. orientalis. The results showed that the two species were different in terms of their mode of life (attached vs. free-living) and GCD size (Figs. 3 and 5, Supplementary Table S3)….

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main-i386-default][science/cp2k] Failed for cp2k-9.1.0 in configure

You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: y…@freebsd.org Log URL: beefy17.nyi.freebsd.org/data/main-i386-default/p429f3de9bdcd_s2573e6ced9/logs/cp2k-9.1.0.log Build URL: beefy17.nyi.freebsd.org/build.html?mastername=main-i386-default&build=p429f3de9bdcd_s2573e6ced9 Log: =>> Building science/cp2k build started at Sat Jun 4…

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Convenience-sized RNA editing | MIT News

Last year, researchers at MIT’s McGovern Institute for Brain Research discovered and characterized Cas7-11, the first CRISPR enzyme capable of making precise, guided cuts to strands of RNA without harming cells in the process. Now, working with collaborators at the University of Tokyo, the same team has revealed that Cas7-11…

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fix checkpatch.pl struct should normally be const — DRI Development

Hi Uri, Thank you for the patch! Yet something to improve: [auto build test ERROR on staging/staging-testing] url: github.com/intel-lab-lkp/linux/commits/Uri-Arev/staging-fbtft-fix-checkpatch-pl-struct-should-normally-be-const/20220520-012948 base: git.kernel.org/pub/scm/linux/kernel/git/gregkh/staging.git 4d0cc9e0e53e9946d7b8dc58279c62dfa7a2191b config: arm64-randconfig-r011-20220519 (download.01.org/0day-ci/archive/20220520/202205200821.nJQ0IfFt-lkp@xxxxxxxxx/config) compiler: clang version 15.0.0 (github.com/llvm/llvm-project e00cbbec06c08dc616a0d52a20f678b8fbd4e304) reproduce (this is a W=1 build): wget raw.githubusercontent.com/intel/lkp-tests/master/sbin/make.cross -O ~/bin/make.cross chmod +x ~/bin/make.cross # install arm64 cross compiling tool…

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Open API Market Size, Trends and Forecast to 2029

New Jersey, United States – The Open API Market report includes the upcoming challenges and opportunities in the market. It ensures a strengthened position in the market and a growing product portfolio by providing all the important details related to the market growth. It reveals some of the key insights and focuses…

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Database Administrator at European Molecular Biology Laboratory (EMBL)

About the team/job In this role you will join an established Database team of database administrators in order to support the ongoing database operations. The main duties for this post are: DBA of MySQL and MongoDB.The Database Team provides day-to-day Database Administration support , database performance tuning and query optimization…

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Description, Programming Languages, Similar Projects of Python-for-Text-Classification

Python for Text Classification with Machine Learning in Python 3.6. Installation Guide Start your environment by picking either pipenv (recommended) or virtualenv. Simple guides are below. Using pipenv Initialize pipenv (setup guide): cd path/to/your/dev/folder mkdir text-classify cd text-classify pipenv install –three After installation of pipenv works, just activate it (same…

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Senior Research Associate, Bioinformatics at Kite Pharma

Job details Job type full-time Full job description Job description At kite pharma we are revolutionizing the treatment for cancers through immunotherapy through novel breakthrough technologyWe have developed and launched best in class car-t therapy yescarta, currently curing patients from previously intractable b-cell malignanciesWe are using our expertise to apply…

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Anthony Nolan hiring Bioinformatics Developer in Swiss Cottage, England, United Kingdom

We’re Anthony Nolan and we save the lives of people with blood cancer who need a stem cell transplant. We’re unique. Thanks to the incredible donors on our register, our pioneering research and our passionate fundraisers, we give the chance of life to three people a day. But we won’t…

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Distributed training on slurm cluster – distributed

chinmay5 (Chinmay5) April 29, 2022, 12:48pm #1 Sorry for the naive question but I am confused about the integration of distributed training in a slurm cluster. Do we need to explicitly call the distributed.launch when invoking the python script or is this taken care of automatically? In other words, is…

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Exploring oncolytic viral therapeutics and immunotherapies derived from DNA and RNA

Due to the high priority and growing need for treatment to alleviate the symptoms associated with potentially fatal prognoses, cancer treatments are continually being developed. Cancer therapies are being developed to prevent malignant cells from forming, proliferating, and metastasizing, as well as assisting in the control of symptoms associated with advanced…

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Euro-BioImaging Bio-Hub – FAIR Image Data Steward at European Molecular Biology Laboratory (EMBL)

About the team/job Euro-BioImaging ERIC (www.eurobioimaging.eu) is a leading pan-European research infrastructure that provides the research community open access to cutting-edge imaging services. The Euro-BioImaging Bio-Hub hosted by European Molecular Biology Laboratory (EMBL) is looking for a highly motivated FAIR Image Data Steward to develop general guidelines and technically support…

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Biomedical/BioInformatics Intern in Rockville, MD

Description Job Description: The Government Health and Safety Solutions Group within the Health group has an opening for a  Biomedical/Bioinformatics Intern. The intern will work alongside data scientists and managers and use biomedical or genomics data to inform health-related research questions. Primary Responsibilities: Under the guidance of Leidos staff, the…

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Molecular Modeling Software for Chemistry Market Size, Scope And Forecast

New Jersey, United States – The Molecular Modeling Software for Chemistry Market report is the ultimate tool to help industries, companies, and organizations make informed decisions for business growth. With the help of the market tactics and strategies covered here, it becomes easy for business players to maintain their position in…

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Bioinformatics Analyst II – Remote in Danville, PA for Geisinger

Details Posted: 22-Apr-22 Location: Danville, Pennsylvania Type: Full Time Salary: Open Categories: Operations Job Summary Primary accountability is to leverage the organization’s data assets exome sequencing data (>180,000 individuals) from MyCode Community Health Initiative to improve quality, efficiency and generate knowledge specifically in the field of bioinformatics within health research….

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Science Papers on Cancer Mutational Signatures, System to Deliver CRISRP-Cas9 Machinery Across Blood-Brain Barrier

By sequencing tumors from thousands of cancer patients and comparing them to similar datasets generated by other research groups, a team led by scientists from the University of Cambridge has identified new mutational signatures of cancer, while also uncovering details about organ-specific common and rare signatures. In the study, which…

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Medical Alert System/Personal Emergency Response System Market Size And Forecast

New Jersey, United States – Medical Alert System/Personal Emergency Response System Market Research Report provides you with detailed and accurate analysis to strengthen your position in the market. It provides the latest updates and powerful insights on the Medical Alert System/Personal Emergency Response System industry to help you improve your business…

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Cannot compile any CUDA program – CUDA Programming and Performance

I am getting the following error when I run sample programs on vs 2022.My details:Windows 11 x64GTX 1650i7 9gen8 gb ram Severity Code Description Project File Line Suppression State Error MSB3721 The command C:\Program Files\NVIDIA GPU Computing Toolkit\CUDA\v11.6\bin\nvcc.exe -gencode=arch=compute_35,code=\sm_35,compute_35\ -gencode=arch=compute_37,code=\sm_37,compute_37\ -gencode=arch=compute_50,code=\sm_50,compute_50\ -gencode=arch=compute_52,code=\sm_52,compute_52\ -gencode=arch=compute_60,code=\sm_60,compute_60\ -gencode=arch=compute_61,code=\sm_61,compute_61\ -gencode=arch=compute_70,code=\sm_70,compute_70\ -gencode=arch=compute_75,code=\sm_75,compute_75\ -gencode=arch=compute_80,code=\sm_80,compute_80\ -gencode=arch=compute_86,code=\sm_86,compute_86\ –use-local-env -ccbin…

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Problem with Python environment and Slurm (srun/sbatch)

I had a similar issue with Slurm Version 20.11.7I had a virtual environment created with the systems python3, which was Python 3.6.8When activating the venv on the logging-node calling an installed module worked fine, but from within the following shell script for example it did not and resulted in ModuleNotFound:…

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Loading environment modules on a cluster from my python script

I recently ran into this. A simple way around this would be to include the dependencies before the command you want, and separate them with a semi-colon cmd = ‘module load intel/2016.4; “gromacs command”‘ p = sub.Popen(cmd, shell=True, stderr = sub.STDOUT, stdout = sub.PIPE).communicate()[0] where “gromacs command” represents however you…

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Enable MBEDTLS debugging Nordic provided security backend (for CoAP Secure via OpenThread on nRF5340) – Nordic Q&A – Nordic DevZone

Goal Hi guys, is there an option to enable MBEDTLS debugging as with the CONFIG_MBEDTLS_DEBUG_LEVEL=4 for the MBEDTLS_BUILTIN? I am trying to setup a DTLS client based in order to establish a CoAP Secure Session via Openthread to a Borderrouter and I am struggling in the handshake process. It would…

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IRC issues on Gaussian : comp_chem

Hi r/comp_chem I am attempting to calculate the for several hydrogen abstraction steps using different heteroatoms on a doublet surface in Gaussian09. When look at the Gibbs energy energy difference between the separated species and the TS I get a positive barrier, but when I look at the enthalpy difference…

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Bioinformatics Application Scientist – Carlsbad

Job Description Bioinformatics Application Scientist (Actual title will depend on qualification and experience, including director level appointment) The Company: Universal Sequencing Technology Corporation (universalsequencing.com), a leading NGS biotechnology company engaged in long range/long read sequencing technology is relocating its headquarters from the greater Boston area to Carlsbad, CA where R&D…

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Tutorial: How to Connect Jupyter Notebooks to Ocean for Apache Spark – The Spot by NetApp Blog

Jupyter Notebook is a web-based interactive computational environment for creating notebook documents. It supports programming languages – such as Python, Scala, R – and is largely used for data engineering, data analysis, machine learning, and further interactive, exploratory computing. Think of notebooks like a developer console or terminal, but with…

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Running bash commands from within python script : bioinformatics

Hi all, I wanted to ask whether anyone has ever come across the problem I have. In my project we need to run few tools on multiple genes. I have written python script that chooses right genes, runs tools and then aggregates results. The problem I have is that after…

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Install Jupyter Notebook on Debian 11 Bullseye Linux

Tutorial to learn the steps involve in the installation of Jupyter Notebook on Debian 11 Bullseye using command terminal. What is Jupyter Notebook? The Jupyter Project is a non-profit initiative that aims to develop and provide open-source software and open standards for interactive work. One of the most famous products…

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Research Biologist Computational Bioinformatics Geneticist Research Associate Job in PEORIA, IL

Summary The Agricultural Research Service (ARS) is the United States Department of Agriculture’s chief scientific research agency and one of the world’s premiere scientific organizations. ARS Postdoctoral Research Associates are hired to supplement a lead scientist’s research on agricultural problems of high national priority affecting American agriculture. **ANNOUNCEMENT IS OPEN…

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GROMACS – SBGrid Consortium – Supported Software

Usage Notes SBGrid Usage Info GROMACS is GPU-accelerated using Nvidia CUDA on Linux. For general information on running GPU accelerated applications from SBGrid, please see here : sbgrid.org/wiki/gpu CUDA builds of GROMACS are designated by a ‘_cu’ suffix in the version of the application. For example, 2020.2_cu9.2.88 is linked against…

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Dissertations.se: INITIATION OF DNA REPLICATION

Showing result 1 – 5 of 43 swedish dissertations containing the words initiation of DNA replication. Author : Elisabeth Jemt; Göteborgs universitet; Göteborgs universitet; Gothenburg University; []Keywords : NATURVETENSKAP; NATURAL SCIENCES; mitochondria; mtDNA; DNA replication; Abstract : Mitochondria produce most of the adenosine triphosphate required in a eukaryotic cell and…

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Generation of Hook Ischemia-Reperfusion Model using a Three-Day Developing Chick Embryo

This paper describes ischemia-reperfusion (I/R) modeling in a 3-day chick embryo using a spinal needle customized hook to better understand I/R development and treatment. This model is simple, quick, and inexpensive. Hi, I am Dr.Syed Shadab Raza, the principal investigator for the Laboratory for Stem Cells and Restorative Neurology, located…

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Bioinformatics Research Scientist (Blue Sky Initiative), Memphis, Tennessee

M. Madan Babus Group and the Center for Data-Driven Discovery in the Department of Structural Biology is seeking a highly driven, Full time Machine Learning Research Scientist support the Kalodimos and Babu Groups on the Blue Sky Initiative “Seeing the Invisible in Protein Kinases.” This project is supported by $35…

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Processing two lists of files with snakemake

I want to use snakemake to do bowtie2 mapping of split read files to a reference genome, and I’d like that rule to be integrated in the general workflow. For that purpose, I first defined a rule to create a bowtie index rule build_bowtie_index: input: referenceGenomeFasta output: expand(“{name}.{index}.bt2”, index=range(1,5), name…

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bash – Python argparse error

It is certainly possible the ‘error’ is the input file 2. However, both try: routines are weird and if this is the real code it would fall over. Something isn’t quite right however, which I’ll touch on at the end. What the code is supposed to say is: try: load…

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