sequencing

Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement

Bam Error Stats Tool (best): analysis of error types in aligned reads.

Compacted and colored de Bruijn graph construction and querying

High-performance UMI tools for NGS data analysis

distributed sequencer with zk consensus

less like viewer for fastq files

Hack music. General purpose language for interactive music, audiovisual art, performance and installation

distributed sequencer with zk consensus

Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing library they are read from. It is intended to differentiate between ARTIC v3, ARTIC v4, ARTIC v4.1, VarSkip 1a, VarSkip 2, Midnight and VarSkip Long primer sets sequenced by Illumina or ONT.

High-performance FASTQ/FASTA quality analysis tool written in Rust — HTML reports, adapter trimming, k-mer analysis, N50/N90, duplication estimation, and real-time TUI

NGS read simulator

Read structures in rust

MotifScan is a streaming, low-memory, multi-threaded Rust CLI for exact motif scanning in FASTA and FASTQ reads.

A fast, modular, streaming bioinformatics toolkit in Rust for FASTQ/FASTA/BAM — a platform that grows through modules, with strong long-read support.

Convert SAM/BAM alignments into uniform tabular output (CSV/TSV/PSV/Parquet)

sequintools is a suite of tools for manipulating and reporting on NGS data that has sequins added to the sample.

Two-pass BAM/CRAM subsampler that tags selected reads in place (per-reference reservoir sampling, qname-dedup bias fix)

CLI tool for flexibly parsing structured sequence reads into count tables and comparing them to expected libraries

Remove adaptors from short-read bisulfite sequencing data (coded in rust)