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sumtool

:hammer: Tool for GWAS summary-level data analysis

super-minityper

Long Read SVs

sv-callers

Snakemake-based workflow for detecting structural variants in WGS data

sv-genotyping-paper

sv-ont-tibetan

Characterization of Structural Variation in Chinese samples

sv-workflows

Structural Variation Workflows

sv_discovery

svimmer

Structural variant merging tool

sviper

Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.

svjedi

SV genotyping with long reads

svmu

A program to call variants from genome alignment

svtyper

Bayesian genotyper for structural variants

svviz

Read visualizer for structural variants

svviz2

for visual evaluation of read support for structural variation

switchgrassgwas

Genome-wide association on the Panicum virgatum diversity panel.

syri

Synteny and Rearrangement Identifier

tassel-box

Bash scripts for automating and streamlining use of the Tassel 5 pipeline

tassel-gbs-and-gwas

Running Tassel pipeline for SNPs identication and associate with traits using phenotype data using GLM

tassel5-scripts

tassel 5 pipeline scripts containing param notes

tassel_selection

Code for GWAS of tassel morphological traits and subsequent scans for selection

tasseltutorial

Hands on tutorial on GBS data analysis

thesis

my PhD thesis

titancna

Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer

toil-vg

Distributed and cloud computing framework for vg

tomatowgsgwasgs

toolkit

Small tools for my projects.

transformphenotype

A shiny app to normalize continuous traits for GWAS

tribes

Finding cryptic relationships to boost disease gene detection

ttplot

Tao Yan's Plot Toolkit

turboman

A superfast Manhattan plot script based on approximate LD blocks with automated peak / gene annotation