Tag: AZ

PyMC3 Normal with variance per column

One can pass an argument for the shape parameter to achieve this. To demonstrate this, let’s make some fake data to pass as observed, where we use fixed values for epsilon that we can compare against the inferred ones. import numpy as np import pymc3 as pm import arviz as…

Continue Reading PyMC3 Normal with variance per column

python – Pymc3 install issues on windows 10

So I downloaded pymc3 (uninstalled and reinstalled a few times) and every time I try to import pymc3 into a jupyter notebook I get some kind of error. I am guessing that I am having an issue with how I am installing Pymc3, I followed this tutorial: github.com/pymc-devs/pymc/wiki/Installation-Guide-(Windows). After my…

Continue Reading python – Pymc3 install issues on windows 10

bayesian – Samples from Conditional Posterior Distribution in Pymc3

Let us consider the following Hierarchical Bayesian model: $w \sim\ Beta(20, 20)$ $K = 6$ $a = w * (K – 2) + 1$ $b = (1 – w) * (K – 2) + 1$ $theta \sim\ Beta(a, b)$ $y \sim\ Bern(theta)$ The above is the example of figure 9.3…

Continue Reading bayesian – Samples from Conditional Posterior Distribution in Pymc3

bayesian – Samples from Marginal Posterior Distribution in Pymc3

Let us consider the following Hierarchical Bayesian model: $mu sim Beta(1, 1)$ $k sim Exponential(1)$ $a = k*mu$ $b = (1-mu) * k$ $theta sim Beta(a, b)$ $y sim Bern(theta)$ The above example is a simplification of the example in figure 2.19 in the book Bayesian Analysis with Python by…

Continue Reading bayesian – Samples from Marginal Posterior Distribution in Pymc3

USNLX Diversity Jobs

USNLX Diversity Jobs Page not found The page you are looking for, diversity.usnlx.com/phoenix-az/bioinformatics-scientist/266939EE4D784F5E819D44A61114A8C5/job/?vs=28, does not exist. If you found this page from a job link, then that job is expired. Where can you go from here? Read more here: Source link

Continue Reading USNLX Diversity Jobs

Looking for help: error occured in simple linear model example – Questions

Thanks for your attention. Codes :import osimport numpy as npimport pandas as pdimport xarray as xrimport pymc3 as pmimport bambi import matplotlib.pyplot as pltimport arviz as azimport theanofrom numpy.random import default_rng %matplotlib inline%config InlineBackend.figure_format = ‘retina’ RANDOM_SEED = 8927rng = default_rng(RANDOM_SEED)az.style.use(“arviz-darkgrid”) size = 50true_intercept = 1true_slope = 2x = np.linspace(0,…

Continue Reading Looking for help: error occured in simple linear model example – Questions

Genomic analysis on Galaxy using Azure CycleCloud

Cloud computing and digital transformation have been powerful enablers for genomics. Genomics is expected to be an exabase-scale big data domain by 2025, posing data acquisition and storage challenges on par with other major generators of big data. Embracing digital transformation offers a practically limitless ability to meet the genomic…

Continue Reading Genomic analysis on Galaxy using Azure CycleCloud

Very slow sampling. Still can’t find what is happening after checking FAQs – Questions

I was using Pycharm with Python 3.7.4 and I was trying to learn from this tutorial:docs.pymc.io/en/v3/pymc-examples/examples/generalized_linear_models/GLM.html After pip install pymc3, I imported it and with 3 warnings:import pymc3WARNING (theano.configdefaults): g++ not available, if using conda: conda install m2w64-toolchainWARNING (theano.configdefaults): g++ not detected ! Theano will be unable to execute optimized…

Continue Reading Very slow sampling. Still can’t find what is happening after checking FAQs – Questions

Frontiers | The cGAS-STING Pathway: A Promising Immunotherapy Target

Introduction Invaded by exogenous or endogenous pathogens, the host immune system will be activated accordingly to resist harm and maintain homeostasis, which includes innate immunity and adaptive immunity. As the first line of host immune defense, innate immunity plays a critical role in recognizing extracellular and intracellular pathogens (1, 2)….

Continue Reading Frontiers | The cGAS-STING Pathway: A Promising Immunotherapy Target

Characterization and expression of DNA sequences encoding the growth hormone gene in African Pygmy Mouse (Mus minutoides)

Abstract We determined the nucleotide sequence of the growth hormone (Gh) gene in Mus minutoides, one of the smallest mammals, where was predicted to be distinct in the functional regions between M. minutoides and Mus musculus. To investigate the evolutionary characteristics of Gh in M. minutoides, we constructed a phylogenetic…

Continue Reading Characterization and expression of DNA sequences encoding the growth hormone gene in African Pygmy Mouse (Mus minutoides)

plotting roh from bcftools

plotting roh from bcftools 0 Heys, I am following this small tutorial on how to calculate ROHs from a vcf file using bcftools (samtools.github.io/bcftools/howtos/roh-calling.html) and I am getting this txt file: # This file was produced by: bcftools roh(1.10.2+htslib-1.10.2-3) # The command line was: bcftools roh -G30 –AF-dflt 0.4 my_file.vcf…

Continue Reading plotting roh from bcftools

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…

Continue Reading gmod advanced duplicator 2

rosetta fold vs alphafold 2

S. Both AlphaFold and Xu use simple folding engines L-BFGS (L- Broyden–Fletcher–Goldfarb– Shanno (BFGS)) and CNS (Crystallography and NMR System), respectively, i.e., improvements come from a better energy potential using distributional information. The phase problem is a problem, to the point that in the past decade, several structures, such as M-PMV…

Continue Reading rosetta fold vs alphafold 2

The Current Molecular Treatment Landscape of Advanced Colorectal Cancer and Need for the COLOMATE Platform

Next-Generation Sequencing Utilizing Tumor Tissue and/or Blood The identification of actionable genomic alterations in tumors such as mCRC was once performed by Sanger DNA sequencing of tumor DNA that was extracted from fixed paraffin-embedded tumor tissue, but this has now been replaced by next-generation sequencing (NGS), which allows for larger-scale…

Continue Reading The Current Molecular Treatment Landscape of Advanced Colorectal Cancer and Need for the COLOMATE Platform

INanoBio Announces Successful Development of Novel Nanopore Transistor Prototype, a Step Towards Ultra-Fast DNA Sequencing

INanoBio Makes Strides Towards Ubiquitous Point-of-Need DNA Sequencing SCOTTSDALE, Ariz.–(BUSINESS WIRE)– INanoBio, a startup developing early stage disease diagnostics by combining semiconductor nanotechnology with biotechnology and machine learning, today announced it has successfully fabricated initial prototypes of its novel Field Effect Nanopore Transistor (FENT) device. FENT is INanoBio’s proprietary technology,…

Continue Reading INanoBio Announces Successful Development of Novel Nanopore Transistor Prototype, a Step Towards Ultra-Fast DNA Sequencing