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svtools

Tools for processing and analyzing structural variants.

svviz

Read visualizer for structural variants

targetspecificgatksequencingpipeline

This package takes FASTQ files from microfluidic PCR paired with next-generation sequencing and produces a filtered VCF file

taskview-missingdata

possible materials for CRAN Task View on Missing Data

tensorflow

Computation using data flow graphs for scalable machine learning

the-unix-workbench

:house_with_garden: A Book for Anyone to Get Started with Unix

threadpool

Parallel Processing in R using a Thread Pool

top-deep-learning

Top 200 deep learning Github repositories sorted by the number of stars.

topmed_workshop_2018

Course materials for SISG Module 12: Computational Pipeline for WGS Data, July 18-20, 2018

torch-residual-networks

This is a Torch implementation of ["Deep Residual Learning for Image Recognition",Kaiming He, Xiangyu Zhang, Shaoqing Ren, Jian Sun](http://arxiv.org/abs/1512.03385) the winners of the 2015 ILSVRC and COCO challenges.

traits

Species traits data

tutorials

twosamplemr

R package for performing 2-sample MR using MR-Base database

ubc-mds.github.io

Unofficial MDS website

vapor

Tool for the validation of structural genomic rearrangements using long read sequence data

variant_calling_pipeline

A simple variant calling and annotation pipeline using BWA, GATK and ENSEMBL.

vcf-validator

Validation suite for Variant Call Format (VCF) files, implemented using C++11

vcfanno

annotate a VCF with other VCFs/BEDs/tabixed files

vcflib

a simple C++ library for parsing and manipulating VCF files, + many command-line utilities

vcftools

A set of tools written in Perl and C++ for working with VCF files, such as those generated by the 1000 Genomes Project.

vep_plugins

Plugins for the Ensembl Variant Effect Predictor (VEP)

vt

A tool set for short variant discovery in genetic sequence data.

wasp

WASP: allele-specific pipeline for unbiased read mapping and molecular QTL discovery

weggis

Bioinformatics for Adaptation Genomics - Winter School 2016

wham

Structural variant detection and association testing

workflowr

Organize your project into a research website

ximmer

Ximmer is a tool for simulation of deletions in targeted genomic sequencing data

xsim.jl

simulate sequence data and complicated pedigree structures

yeast-epistasis-paper

Code for Forsberg et al. "Accounting for genetic interactions improves modeling of individual quantitative trait phenotypes in yeast"