mygene

Multi-type data labeling and annotation tool

Standard data-centric AI package for data quality and machine learning, automatically detecting label errors, outliers, and dataset issues to improve scientific dataset reliability and model performance (11K+ stars, MIT License)

Prokka: rapid prokaryotic genome annotation. Prokka is one of the most cited annotation command line tools for microbial genome annotations.

Bakta is a tool for the rapid & standardized annotation of bacterial genomes & plasmids. It provides dbxref-rich and sORF-including annotations in machine-readable JSON & bioinformatics standard file formats for automatic downstream analysis.

Annotate a VCF with other VCFs/BEDs/tabixed files.

Performs unbiased cell type recognition from single-cell RNA sequencing data, by leveraging reference transcriptomic datasets of pure cell types to infer the cell of origin of each single cell independently.