lparsons

accucor

reference_processing

Process reference from NCBI for use with various RNA-Seq tools. Creates Fasta, GFF, GTF files. Currently written to work with bacteria.

tracebase-sample-list

List sample names from directory of AccuCor or Isocor files

archaic_match

bioconda-recipes

Conda recipes for the bioconda channel.

ElMaven

LC-MS data processing engine for large-scale metabolomic experiments.

tools-iuc

Tool Shed repositories maintained and developed by the Intergalactic Utilities Commission

blog

syndicated blog for research software engineer stories and experiences

bsgenomeforge

Custom BSGenome packages for Bioconductor

cbutils

Miscellaneous Utilities

dotfiles

galaxytools

:microscope::books: Galaxy Tool wrappers

kas-seq-workflow

KAS-Seq Analysis Workflow

lparsons.github.io

MitoRiboSeq

Codes for processing mitochondrial ribosome profiling data

pf15-smallrna-rseto

Pf15 Small RNA-Seq analysis for Murphy Lab - Renee Seto Apr 2, 2024

plastid

Position-wise analysis of sequencing and genomics data

rna-seq-star-deseq2

RNA-seq workflow using STAR and DESeq2

slurm-tests

Scripts to test slurm

snakemake

This is the development home of the workflow management system Snakemake. For general information, see

snakemake-wrappers

This is the development home of the Snakemake wrapper repository, see

super-duper-journey

TigerFISH

Fork of FISH Image Analysis used at Princeton

TM3Seq-Pipeline

toil

A scalable, efficient, cross-platform (Linux/macOS) and easy-to-use workflow engine in pure Python.

tools-devteam

Contains a set of Galaxy Tools mostly written by the Galaxy Team.

us-rse-logo

logos, templates, and related resources

usrse.github.io

US RSE umbrella web page

worm-functional-connectivity

WormCount

Estimate the count of C. Elegans from an image of a plate.