bam
Frequently used commands in bioinformatics
A universal model datastructure for design, analysis, fabrication, and construction
Fast sequencing data quality metrics
Python implementation to calc mappability-sensitive cross-correlation for fragment length estimation and quality control for ChIP-Seq.
Annotate variants in a VCF file with technical annotations from one or more BAMs
slurp noodles-htsget streams into python
Pure-Rust BAM/CRAM depth, pileup and stats — fast, multi-threaded, Windows-native. Originally forked from rustbam.
Lightweight, agent-friendly inspection and contract validation for bioinformatics artifacts.
Placeholder for biolic, a fast streaming bioinformatics toolkit. Python bindings are planned; the tool currently ships as a Rust CLI.
A language model enables accurate structural variant detection in whole-genome amplified long-read sequencing
Get paths for fast5 files contained in BAM, SAM, or fastq.
Python implementation of htslib supporting BAM, SAM, and BGZF compression
