itsmestewart Goto Github PK

2022-ts-workshops

Notebooks for tree sequence workshops in 2022.

admixtools

Tools test whether admixture occurred and more

admixtools_2

admixture-smartpca-plink-and-eigensoft

Scripts and notes on how to analyse ancient DNA genotype data to understand population structure

admixtureplot

ai_workshop

Data, tutorial, and lecture slides for building custom neural network models

ancestry_pipeline

Provides helper scripts for inferring local ancestry, performing ancestry-specific PCA, etc

association_studies_2023

autoencoders_workshop

Collection of materials for teaching about autoencoders

awesome-genome-visualization

A list of interesting genome browser or genome-browser-like implementations

bmi_stratified_t2d_prs

bsmkumbe-github.io

compvar-workshop-docs

Documentation for the 2018 Genome Analysis workshop I gave in Helsinki

courses

data

data-science-at-the-command-line

Data Science at the Command Line

doc-annovar

Documentation for the ANNOVAR software

duphold

don't get DUP'ed or DEL'ed by your putative SVs.

eig

Eigen tools by Nick Patterson and Alkes Price lab

gatk4-mitochondria-pipeline

This repo is be archived, these workflows are still housed housed in the GATK repository under the scripts directory. The workflows are also organized in Dockstore in the GATK Best Practices Workflows collection.

getting-started-with-genomics-tools-and-resources

Unix, R and python tools for genomics and data science

hail

Cloud-native genomic dataframes and batch computing

humangenepi

itsmestewart

Config files for my GitHub profile.

jvarkit

Java utilities for Bioinformatics

ldhat

Estimate recombination rates from population genetic data

memes

An R interface to the MEME Suite

mitohpc

mitovizr

R package to plot Human Mitochondrial Variants from Dataframes, VCF or JSON files

mtdna

Characterization of mitochondrial DNA quantity and quality in the human aged and Alzheimer’s disease brain