An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
☆2,370Jun 1, 2026Updated last week
Alternatives and similar repositories for fastp
Users that are interested in fastp are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Toolkit for processing sequences in FASTA/Q formats☆1,541Jun 1, 2025Updated last year
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,569Jun 1, 2026Updated last week
- The next version of bwa-mem☆837Oct 15, 2025Updated 7 months ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,193May 19, 2026Updated 3 weeks ago
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,459May 20, 2026Updated 2 weeks ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,748Mar 22, 2025Updated last year
- Tools for working with SAM/BAM data☆610Dec 22, 2024Updated last year
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆856May 2, 2026Updated last month
- The second version of the Kraken taxonomic sequence classification system☆909Updated this week
- Tools (written in C using htslib) for manipulating next-generation sequencing data☆1,911May 21, 2026Updated 2 weeks ago
- Official code repository for GATK versions 4 and up☆1,962Updated this week
- A quality control analysis tool for high throughput sequencing data☆601Jun 2, 2026Updated last week
- RNA-seq aligner☆2,201Mar 18, 2025Updated last year
- Mummer alignment tool☆561Feb 4, 2025Updated last year
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- SPAdes Genome Assembler☆939Updated this week
- Tools to process and analyze deep sequencing data.☆761Jul 23, 2025Updated 10 months ago
- Cutadapt removes adapter sequences from sequencing reads☆581Apr 6, 2026Updated 2 months ago
- A fast lossless FASTQ compressor with ultra-high compression ratio☆152May 28, 2025Updated last year
- Accelerated BLAST compatible local sequence aligner.☆1,300Jun 2, 2026Updated last week
- Ultra-fast and memory-efficient (meta-)genome assembler☆719Oct 28, 2025Updated 7 months ago
- DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.☆3,725Mar 19, 2026Updated 2 months ago
- SRA Tools☆1,344Updated this week
- Generate duplex/single consensus reads to reduce sequencing noises and remove duplications☆127Oct 27, 2023Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- De novo assembler for single molecule sequencing reads using repeat graphs☆935Apr 3, 2026Updated 2 months ago
- Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data☆214May 14, 2020Updated 6 years ago
- hybrid assembly pipeline for bacterial genomes☆643Jul 25, 2024Updated last year
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆889Mar 11, 2026Updated 2 months ago
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆672Dec 3, 2022Updated 3 years ago
- Fast Whole-Genome Similarity (ANI) Estimation☆463Dec 16, 2025Updated 5 months ago
- bedtools - the swiss army knife for genome arithmetic☆1,038Mar 11, 2025Updated last year
- A fast and sensitive gapped read aligner☆793Jun 1, 2026Updated last week
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆870Apr 20, 2026Updated last month
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.☆1,068Apr 25, 2026Updated last month
- Scripts to download genomes from the NCBI FTP servers☆1,078Apr 7, 2026Updated 2 months ago
- Genome assembly evaluation tool☆513Nov 14, 2024Updated last year
- Strelka2 germline and somatic small variant caller☆394Apr 20, 2026Updated last month
- Gene fusion detection and visualization☆132Feb 21, 2022Updated 4 years ago
- Plot structural variant signals from many BAMs and CRAMs☆566Jul 13, 2024Updated last year
- Tools for handling Unique Molecular Identifiers in NGS data sets☆547Jun 1, 2026Updated last week