bam

Randomly subsample sequencing reads or alignments

Creating alignment plots from bam files

Identify which human reference genome was used to align a BAM/SAM/CRAM file

bedpull - Pull the query sequence from bam or fasta references using a bed file

Turns same-codon SNVs into MNVs and computes the true amino acid change

Utility to check Binary Sequence Alignment / Map (BAM) files for corruption and repair them

Fast SAM/BAM sorter.

Efficient gzip to BGZF transcoder using half-decompression (2-4x faster than decompress+recompress)

A lightweight wrapper to run minimap2 (v2.30) alignments directly on BAM file

High-performance SRA-to-SAM/BAM converter replacing NCBI sam-dump

Quick k-mer-based FASTA/FASTQ sequence record extraction, and SAM/BAM record filtering plus file annotation with k-mer tags.

A drop-in replacement for UMI-tools, written in Rust. Same flags, same output — 16–90x faster on benchmark inputs.

Pure-Rust BAM/VCF/BCF depth, pileup, variants & stats with Python bindings — native Linux/macOS/Windows wheels, pysam-parity, no htslib.

Rust FFI crate for bwa-mem3 with packed-BAM output and caller-owned parallelism

an API for intersections of genomic data

Picard-compatible Rust tools for faster SAM/BAM/CRAM, VCF, duplicate-marking and sequencing-QC workflows.

AI algorithms visualization made with Rust

Filter BAM file based on read mean QV, implemented in Rust

Rust-powered BAM depth extraction with Python bindings

whittle: coordinate-consistent trimming of long-read uBAM and tagged FASTQ