Stars
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
bedtools - the swiss army knife for genome arithmetic
Collect information about dependencies between a github repo and other repositories. Results available in JSON, markdown and badge
Snakemake workflow to automatically build and organize reference genomes for common alignment tasks
Repository for the paper "The impact of package selection and versioning on single-cell RNA-seq analysis"
Gene circuit design using Monte Carlo tree search
Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab
Table of software for the analysis of single-cell RNA-seq data.
🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results
A markdown version emoji cheat sheet
💡 Looking for inspiration for your next open source project? Or perhaps you've got a brilliant idea you can't wait to share with others? Open Source Ideas is a community built specifically for this! 👋
Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
A versatile pairwise aligner for genomic and spliced nucleotide sequences
🧬 gget enables efficient querying of genomic reference databases
scimmunity is a python tool for analyzing single-cell RNAseq data specifically for immune and cancer cells. It includes preprocessing, dimension reduction, clustering, annotation, visualization, di…
scRNA-seq clustering, visualization, and differential expression pipeline from Sims Lab papers
pure python data plotting using scalable vector graphics
The NLP Bias Identification Toolkit
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.