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The Wayback Machine - https://web.archive.org/web/20220523104013/https://github.com/topics/fastq
Here are
187 public repositories
matching this topic...
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 in Golang
Versatile open-source tool for microbiome analysis
The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.
zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
Viral genomics analysis pipelines
Updated
Nov 3, 2020
Python
A high performance and compression ratio compressor for genomic data, powered by GTXLab of Genetalks.
A collection of scripts and notes related to genomics and bioinformatics
Detect and visualize target mutations by scanning FastQ files directly
An efficient FASTQ manipulation suite
a python package for fast random access to sequences from plain and gzipped FASTA/Q files
FastQC port to Qt5: A quality control tool for high throughput sequence data.
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.
Updated
May 20, 2022
Python
Simple FASTQ quality assessment using Python
Updated
May 22, 2021
Python
💾 📃 "Reads to report" for public health and clinical microbiology
Randomly subsample sequencing reads to a specified coverage
Compressor for genomic files (FASTQ, SAM/BAM, VCF, FASTA, GVF, 23andMe...), up to 5x better than gzip and faster too
A DNA Sequence Alignment/Map (SAM) library for Clojure
Updated
May 9, 2022
Clojure
Pipeline to fetch metadata and raw FastQ files from public and private databases
Updated
May 17, 2022
Groovy
🚀 seqfu - Sequece Fastx Utilities
Efficient handling of FASTQ files from Python
Updated
May 22, 2022
Python
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
Updated
May 10, 2022
Python
Exome/Capture/RNASeq Pipeline Implementation using snakemake
Updated
Mar 26, 2018
Python
Nucleotide Archival Format - Compressed file format for DNA/RNA/protein sequences
Parse and process FASTA and FASTQ formatted files of biological sequences.
Updated
Mar 29, 2022
Julia
Accelerating the deduplication and collapsing process for reads with Unique Molecular Identifiers (UMI). Heavily optimized for scalability and orders of magnitude faster than a previous tool.
FASTA and FASTQ parsing in Rust
Updated
Nov 12, 2020
Rust
Updated
Mar 21, 2020
Rust
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When working with very large SAM files it is often convenient to remove sequence and quality information to reduce storage and improve I/O.
Following from this it would be convenient to have a
stripSeqQualfunction that replaces the two fields with*.