Digital Expression Explorer 2 (DEE2): a repository of uniformly processed RNA-seq data

Variant Interpretation Pipeline

the miscellaneous analysis scripts used in the research of pan-Zea genome and genetics

The home of the FlyBase miscellaneous ontologies - incorporating the Drosophila Phenotype Ontology (see also FlyBase/drosophila-phenotype-ontology)

Genomic Structural Equation Modelling and Mendelian Randomization of Loneliness and Psychiatric/Substance Use Phenotypes

Automated imputation pipeline for arbitrary dataset and reference panels.

Simple code for PS detection, can be used on several files

A collection of scripts for filtering annotated variant call format files

HARE is the GPU workflow of the HAT https://github.com/TNTurnerLab/HAT tools.

Stacks is a software pipeline for building loci from short-read sequences - Now in a Docker

WIP & POC: Count Viral and other non-human genome signatures in Human NGS data

A set of job submission scripts to run STACKS (http://catchenlab.life.illinois.edu/stacks/) on a computer cluster with TORQUE/MAUI scheduler. All the files were used to generate GBS data analyses published on the manuscript

A Practical Haplotype Graph (PHG) for apple (Malus domestica)

convert genotype array output into annotated IBD segments

PhyFocus is a conceptual approach to gene family phylogenetics that emphasizes extensive sequence input to generate broad phylogenies for subsequent refining. Phyfocus was conceptualized by David C. Plachetzki, with pre-release coding by Curtis Provencher.

Script to process illumina reads from museum specimens

TNTurnerLab Code for Revio Neuro-2a paper

(Next-generation; in-development) VarFish Docker Compose

Code accompanying the manuscript on Genome variation in alpine bumblebees.

A set of command-line tools to create heatmaps of RNA-seq and ChIP-seq data