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bioconductor_test

bioinformatic_scripts

Bioinformatic Scripts written in Kotlin Script, Python, R, etc. that may use BioKotlin, TASSEL 5, TASSEL 6, PHG, etc. as dependencies

biokotlin

breeder-genomics-hub

The Breeder Genomics Hub is a batteries-included JupyterHub distribution for breeders (Pangeo for plant scientists)

breeder-notebook

A Jupyter Docker Stack for Plant Scientists and Breeders

bwa-mem2

The next version of bwa-mem

commonbean-phg-v2

Scripts and notes for building a common bean PHG using v2 architecture

field-book

Field Book

hubtools

Utility functions designed for R notebooks within the Breeder's Genomics Hub

kotlin-compiler-server

Server for executing kotlin code

kotlin-jupyter-libraries

Library descriptors for Kotlin kernel for Jupyter

maize-genetics.github.io

Deployment site for test code

mgjars

R package for distributing jar files for rTASSEL and rPHG methods.

models

Model zoo for genomics

msar

The BioJS MSA viewer wrapped into an R package

phg-docs

phg_v2

PHG version 2

reelgeneshiny

Shiny App from the hackathon of reelGene scores and other data

rphg

R front-end for the Practical Haplotype Graph (PHG)

rphg2

R interface to PHGv2

rtassel

R front-end for TASSEL

rtassel_sandbox

rTASSEL sandbox environment using Binder

tassel-6-source