Tag: CLUE

Scientists expand entomological research usin

image: Fanflow4Insects consists of three pipelines. view more  Credit: Hidemasa Bono, Hiroshima University (CC-BY 4.0) Genome sequencing, where scientists use laboratory methods to determine a specific organism’s genetic makeup, is becoming a common practice in insect research. A greater understanding of insect biology helps scientists better manage insects, both those that…

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GEDmatch | segment-ology

A Segment-ology TIDBIT Genetic Genealogy has two main parts: genetic – the Shared DNA Segments; and genealogy – the Most Recent Common Ancestor (MRCA) with a Match. In a perfect world we link a Match and his/her Shared DNA Segment to the MRCA who passed it down to both of…

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Bioconductor – ComplexHeatmap

DOI: 10.18129/B9.bioc.ComplexHeatmap     This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see ComplexHeatmap. Make Complex Heatmaps Bioconductor version: 3.14 Complex heatmaps are efficient to visualize associations between different sources of data sets and reveal potential patterns. Here the ComplexHeatmap package provides a highly…

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MND1 Expression as a Predictor of Breast Cancer Survival

Introduction Breast cancer (BC) is the most commonly diagnosed cancer in women, and it is the main cause of cancer mortality in women around the world.1 Although standard treatments for breast cancer, including surgery, radiotherapy, chemotherapy, endocrine therapy, targeted therapy, and immunotherapy, have greatly improved during the last few decades.2,3…

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Sequence Duplication Levels failed FastQC Report

Sequence Duplication Levels failed FastQC Report 1 Hi all, I’m checking quality for my RNA-Seq through FastQC and all my fastq failed on “Per base sequence content” and “Sequence Duplication Levels”, besides warning on “Overrepresented sequences” only for read 1 files (it’s paired-end; the sequences match between samples). Below is…

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AlphaFold, GPT-3 and How to Augment Intelligence with AI

This is the first post in a two-part series. Read Part 2 here. Around the same time that Alan Turing was shaping his theories of machine intelligence in Manchester, another future giant of the computing world, Douglas Engelbart, was developing an alternative computing paradigm over 5,000 miles away in…

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AutoKinship at GEDmatch by Genetic Affairs

Genetic Affairs has created a new version of AutoKinship at GEDmatch. The new AutoKinship report adds new features, allows for more kits to be included in the analysis, and integrates multiple reports together: AutoCluster – the autoclusters we all know and love AutoSegment – clusters based on segments AutoTree –…

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Investigating binding dynamics of trans resveratrol to HSA for an efficient displacement of aflatoxin B1 using spectroscopy and molecular simulation

Spectroscopic studies The binding and interactive mode of flavonoid trans-resveratrol with HSA was investigated before its use as a dislodging agent for HSA bound AFB1. The binding behavior was studied using spectroscopic tools like fluorescence spectroscopy and UV–visible spectroscopy. UV-absorption spectroscopy was used to ascertain the structural changes induced by…

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python – Stop execution of my notebook without inputting anything

I tried to build a model using lightgbm with the dataset of kaggle’s competition, which is www.kaggle.com/c/ubiquant-market-prediction, on google colaboratory. I wrote codes to build a model by reference to some notebook and it works on kaggle notebook, but it doesn’t work on google colaboratory. The following lines were outputted….

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Why does stacked barplot ggplot in R sum values?

When I make the following, I want just to compare the three years not to sum them. And the actual code sums them even if I don’t tell it to do it. Any clue? hoteles <- tibble::tribble( ~Hotel , ~Año, ~Ingresos , “Hawaiian Club” , “1993”, 450000 , “Hawaiian Club”…

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10 things we learned about microbes in 2021

Take a trip to the marvelous world of microbes, where bacteria breathe electricity, neon-yellow slime molds forage for snacks on the forest floor, and thousands of mysterious viruses hang out in your guts. This year, scientists made a slew of fascinating discoveries about the microscopic organisms living in and all…

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Installing Bio::DB::Big::File on Ubuntu (Building and testing…)

Installing Bio::DB::Big::File on Ubuntu (Building and testing…) 0 Hi everyone, I’m trying to install VEP, I already downloaded all the recommended PERL libraries/dependencies/modules But I still have a problem with Bio::DB::Big::File and Bio::DB::Big::AutoSQL They asked for lib big wig. I’ve found three ways to install this (in my understanding): sudo…

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Where Do Species Come From?

The evolutionary biologist Jochen Wolf was working from home when we first spoke, in April, 2020. Germany was under lockdown, and his lab, at Ludwig Maximilian University, in Munich, had been closed for weeks. Still, a reminder of his research had followed him from the office. “I have a crow…

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Which AWS instance type for peak calling with ChIP-seq data?

Which AWS instance type for peak calling with ChIP-seq data? 0 We have generated ChIP-seq and RNA-seq datasets and are considering using Amazon’s AWS cloud computing service to run various peak calling programs, assess peak reproducibility between replicates, and genome browser visualization. AWS offers several instance types and I have…

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gmod advanced duplicator 2

Advanced Duplicator 2 is a Garry’s Mod addon which implements a tool similar to the Duplicator, but with many added features. Yeah no problem mate, thanks for the response. I’m done with gmod and I don’t take requests, so please stop spamming the comment section. “Originally published in single magazine…

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rsem-calculate-expression with STAR takes forever but without error

rsem-calculate-expression with STAR takes forever but without error 1 Hi all, I am running rsem-calculate-expression after succesfully generating the reference files with rsem-prepare-reference. However, the command never proceeds past: “started mapping” like in the example below Sep 16 08:44:43 ….. started STAR run Sep 16 08:44:43 ….. loading genome Sep…

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Ensembl VEP Plugin not working

Ensembl VEP Plugin not working 0 Hi all… I’m using SubsetVCF plugin to extract some fields from my VCF file when using VEP annotator. I’ve noticed that using VCFv4.1, the plugin works fine but not with VCFv4.2. Are there any limitations to the VCF version that impacts the plugin? Does…

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Classifiers for predicting coronary artery disease

Introduction Coronary artery disease (CAD) is a complex pathology associated with behavioral and environmental factors.1–3 CAD shows high prevalence and is associated with a high fatality rate among cardiovascular diseases. The main manifestations of CAD are stable or unstable angina pectoris and identifiable or unrecognized myocardial infarction.4 The main risk…

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Old not current gamemode named ‘Murder’ to add to Gmod iceberg. With xFire gone the remaining footage/media seems missing : gmod

It was a game where you had a less colorful UI than the current and no random generated names. You’d be around much more Clue like environments such as a dark storming island with a spooky huge mansion on it. People would all have guns I believe maybe no body…

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The challenge of finding new tools to fight prostate cancer

Aurich Lawson | Getty Images In the US, September is National Prostate Cancer Awareness Month. This feature highlights why catching prostate cancer early can be critical, and what researchers are doing to improve the odds of controlling the disease once it’s found. Prostate cancer is a paradox. It has one…

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ariana grande best friends

In a 2014 interview with Lossip, the girl group couldn’t help but gush about Grande and how amazing of a friend she is. Food blogger Alexa Luria (born December 25, 1993) is an American food blogger. Ariana Grande. This is in a large format, it’s appropriate for all ages. So…

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To find new antibiotics, will technology overtake underwater exploration?

LAKE SUPERIOR — Choppy, windswept waves slap at the hull as our boat nears the last known location of the Lucerne, a schooner that sank to the bottom of Lake Superior in 1886. The wreck, just off a narrow sand peninsula jutting from the northern tip of Wisconsin, doubles as…

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Different Gene Lengths and Expected Gene Lengths from Sample to Sample

Different Gene Lengths and Expected Gene Lengths from Sample to Sample 0 Hi all, I have come across something I have never seen before. I am working with some data from an outside source which appears to be processed RNA-seq files. Like other processed RNA-seq files I have ran into…

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History of insects living on open ocean tracked with history of currents they ride

The open oceans are harsh and hostile environments where insects might not be expected to thrive. In fact, only one insect group, ocean skaters, or water striders, has adapted to life on the open seas. How these insects evolved to conquer the high seas, however, was not known. Now, a…

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Extract multiple times a fasta sequence from a list by name

Hi everybody! I have uploaded on R a list of 9K fasta sequences, on which 40K SNPs map to – which means, some sequence host 1+ SNP. I have a R object (and a vcf as well) with the fasta sequences names and the SNP positions and I want to…

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Bioconductor – Single.mTEC.Transcriptomes

DOI: 10.18129/B9.bioc.Single.mTEC.Transcriptomes     This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see Single.mTEC.Transcriptomes. Single Cell Transcriptome Data and Analysis of Mouse mTEC cells Bioconductor version: 3.8 This data package contains the code used to analyse the single-cell RNA-seq and the bulk ATAC-seq data…

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How do I start clue GO in R using the cytoscape REST API?

How do I start clue GO in R using the cytoscape REST API? 0 Hi there, I am trying to connect to open the Clue GO application in R using cytoscape REST API. I have the following code: port.number = 1234 host.address <- “localhost” cytoscape.base.url = paste(“http://”,host.address,”:”, toString(port.number), “/v3.11.1″, sep=””)…

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