Jason Stajich's repositories
KassonLab_PopGenomics_Nectriaceae_magnoliae
Nectriaceae magnoliae population genomics
smudgeplot
Inference of ploidy and heterozygosity structure using whole genome sequencing data
VCF-parser
GEN220 project
adrian_chopchop
Example of how to setup Chop Chop runs
antismash_documentation
The antiSMASH online documentation
bioconda-recipes
Conda recipes for the bioconda channel.
BioCrust_Chihuahuan_PRJNA748083
Chihuahuan desert biocrust samples for PRJNA748083
BioData_KEGG_decoder
bjtully - All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
dbcanLight
A lightweight rewrite of run_dbcan for better multithread performance
DspikeIn
The importance of converting relative to absolute abundance in the context of microbial ecology: Introducing the user-friendly DspikeIn R package
find_ping_pong_JinfengPipeline
Directory for running Jinfeng's code for finding Ping. This directory is also found in the Rice_Rice_Baby team in the Stajich Lab github.
fungalgenomes.org
FungalGenomes / Hyphaltip blog
kofam_scan
CLI tool to annotate genes with KOfam
make_amptkdb_refseq
temp repo to make amptk libraries from ncbi refseq target loci
methylmap
Methylmap is a tool for visualization of modified nucleotide frequencies for large cohort sizes.
relocate2_data_parsing
Project is designed around the manipulation of Relocate2 results. The goal is to have a place for code that is used to create combined insertion table.
sourmash
Quickly search, compare, and analyze genomic and metagenomic data sets.