fastq

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation

Versatile open-source tool for microbiome analysis

The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

a python package for fast random access to sequences from plain and gzipped FASTA/Q files

zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs

Randomly subsample sequencing reads or alignments

A collection of scripts and notes related to genomics and bioinformatics

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

[THIS REPO IS DEPRECATED] see newer repos: https://github.com/broadinstitute/viral-core https://github.com/broadinstitute/viral-assemble https://github.com/broadinstitute/viral-phylo https://github.com/broadinstitute/viral-classify https://github.com/broadinstitute/viral-pipelines

Pipeline to fetch metadata and raw FastQ files from public databases

A modern compressor for genomic files (FASTQ, SAM/BAM/CRAM, VCF, FASTA, GFF/GTF/GVF, 23andMe...), up to 5x better than gzip and faster too

A high performance and compression ratio compressor for genomic data, powered by GTXLab of Genetalks.

Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.

Detect and visualize target mutations by scanning FastQ files directly

NGLess: NGS with less work

💾 📃 "Reads to report" for public health and clinical microbiology

An efficient FASTQ manipulation suite

🚀 seqfu - Sequece Fastx Utilities

FastQC port to Qt5: A quality control tool for high throughput sequence data.