Tools for single-cell data processing
MIT License
SARS-CoV-2 analysis pipeline for short-read, paired-end illumina sequencing
Tool for ribo-seq analysis. Most of the functionality moved to ribotricer (https://github.com/smi...
User-friendly tool to infer cell-cell interactions and communication from gene expression of inte...
Deep probabilistic analysis of single-cell and spatial omics data
Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python
Single cell RNA Seq data analysis with quantitative phenotypes
A collection of useful bioinformatics scripts.
Alignment and antibody assembly pipelines for Croote et al. (Science, 2018)
Single-cell analysis in Python. Scales to >1M cells.
Code to process raw SNARE-seq ATAC reads
HPC pipeline for overlapping V4 16S rRNA reads generated on Illumina MiSeq
scCellFie, inspired by the MATLAB-based CellFie tool, offers advanced analysis of metabolic funct...
Community-curated list of software packages and data resources for single-cell, including RNA-seq...
Processing pipeline for single-cell barcoded Tn5 assays
Framework for integrated analysis and plotting of ChIP/RIP/RNA/*-seq data