Some of the below software packages are intended for internal lab usage. It has not been extensively tested. Use at your own risk. Most of the software packages are licensed under GPLv3 unless stated otherwise.

g3tools

• This is an R packages with a collection of general purpose tools for Statistical Genomics, Quantitative Genetics, and Population Genetics studies, especially for crop/plant species.

huskeR

• This is an R packages to generate bioinformatics analysis pipelines and submit jobs to a slurm-based HPC system, especially for HCC at UNL.

run-latexdiff

• A python command line tool to create latexdiff pdf for different git commits. Modified from scm-latexdiff. All credits go to scm-latexdiff.

pseudoRef

• It is an R package to make a pseudo reference genome subsituted with the SNP variants for given samples.

zmSNPtools

• A collection of python, perl and R code designed to process a range of basic SNP manipulation tasks.