aryarm

varCA

Use an ensemble of variant callers to call variants from ATAC-seq data

as_analysis

A complete Snakemake pipeline for detecting allele specific expression in RNA-seq

studycloud.hackathon

hmcbbq

Automate BBQ request submission to the Harvey Mudd Dining Hall

stepik-cli

An (unofficial) Stepik command line interface for students

str_ase

Allele-specific expression (ASE) for short tandem repeats (STRs)

VarBench

Benchmarking variant callers for long read data

flower_map

Automated flower species classification for generating honey-bee foraging maps

aryarm-conda

Scripts, recipes, and docs for conda packages

bahais-ucsd

The website of the Baha'i Club at UC San Diego

conda-pack

Package conda environments for redistribution

demo-docker-action

A demonstration of using GitHub actions to build and push reproducible, conda-based Docker containers with best practices

motif_check

Evaluate de novo motif finding tools

plink-ng

A comprehensive update to the PLINK association analysis toolset. Beta testing of the first new version (1.90), focused on speed and memory efficiency improvements, is finishing up. Development is now focused on building out support for multiallelic, phased, and dosage data in PLINK 2.0.

sc_rats

Analyzing single cell ATAC data from the brains of drugged rats

snakemake

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

species-gene-coexp

A cross-species gene coexpression analysis in cerebral cortical tissue

str_callers

Benchmarking long-read STR callers

transit

An accumulation of transit-related project information for the SoCal region

WASP

WASP: allele-specific pipeline for unbiased read mapping and molecular QTL discovery