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Starred repositories
R toolkit for the analysis of single-cell chromatin data
Unofficial repo for software vendoring or packaging purposes
Methylation/modified base calling separated from basecalling.
Pod5: a high performance file format for nanopore reads.
Fast and accurate de novo assembler for long reads
A scanpy extension to analyse single-cell TCR and BCR data.
pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene reg…
Generating iToL annotations from Spreadsheet or CSV files
MetMiner: A user-friendly pipeline for large-scale plant metabolomics data analysis
A package to help convert different single-cell data formats to each other
Phylogenetic orthology inference for comparative genomics
Python version of Factored Spectrally Transformed Linear Mixed Models
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
Create and modify Word documents with Python
NicheNet: predict active ligand-target links between interacting cells
The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This algorithm also works in bulk expression profiling data.)
Virtual whiteboard for sketching hand-drawn like diagrams