Shab86

statsmodels

Statsmodels: statistical modeling and econometrics in Python

terminal-mac-cheatsheet

List of my most used commands and shortcuts in the terminal for Mac

Awesome-Bioinformatics

A curated list of awesome Bioinformatics libraries and software.

antimicro

[NOT maintained anymore] Graphical program used to map keyboard buttons and mouse controls to a gamepad. Useful for playing games with no gamepad support

big-mac-data

Data and methodology for the Big Mac index

pubmed_parser

:clipboard: A Python Parser for PubMed Open-Access XML Subset and MEDLINE XML Dataset

23andme2vcf

convert your 23andme raw file to VCF | DEPRECATED, please see https://github.com/plantimals/2vcf

msmc-tools

Tools and Utilities for msmc and msmc2

gwas

Scripts for GWAS association and metaanalysis

LDJump

R Package to Estimate Variable Recombination Rates using Population Genetic Data

iSAFE

Pinpoints the mutation favored by selection

machine_learning

Machine learning in R

rsquared.glmm

R-squared for generalized linear mixed effects models

aloft

ALOFT, the Annotation Of Loss-of-Function Transcripts, provides extensive functional annotations to loss-of-function variants in the human genome.

ABLE

ABLE - Approximate Blockwise Likelihood Estimation

TreeWAS

magic

Minimal Assumption Genomic Inference of Coalescence

Bherer_etal_SexualDimorphismRecombination

Recombination maps from Bhérer, C. et al. Nature Communications

teddypi

The TeddyPi pipeline: Transposable Element detection and discovery for Phylogenetic inference

sfs-num-analysis

An R program for numerically computing the expected site frequency spectrum in a single population.

sheep-recombination

Analysis of recombination in sheep populations

arvin

Identifying Risk Noncoding Variants Using Disease-relevant Gene Regulatory Networks

motiflocation

Small program to find motif locations in FASTA files.

compvar-workshop-docs

Documentation for the 2018 Genome Analysis workshop I gave in Helsinki

ptdt

Polygenic Transmission Disequilibrium Test (pTDT)

px_chol

Scripts used for Gene-Based Association Study for Lipid Traits in Diverse Cohorts Implicates BACE1 in Triglyceride Levels

rMCMC

Recombination MCMC

Kinpute

DivPop

Genetic architecture of gene expression traits across diverse populations

magic

Minimal Assumption Genomic Inference of Coalescence