An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
☆2,341Apr 24, 2026Updated this 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☆1,538Jun 1, 2025Updated 10 months ago
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,543Apr 23, 2026Updated last week
- The next version of bwa-mem☆829Oct 15, 2025Updated 6 months ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,164Updated this week
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,445Updated this week
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,731Mar 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☆847Updated this week
- Tools (written in C using htslib) for manipulating next-generation sequencing data☆1,887Apr 23, 2026Updated last week
- The second version of the Kraken taxonomic sequence classification system☆895Apr 1, 2026Updated 3 weeks ago
- Official code repository for GATK versions 4 and up☆1,940Apr 23, 2026Updated last week
- A quality control analysis tool for high throughput sequencing data☆598Apr 13, 2026Updated 2 weeks ago
- RNA-seq aligner☆2,188Mar 18, 2025Updated last year
- Mummer alignment tool☆558Feb 4, 2025Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- SPAdes Genome Assembler☆932Updated this week
- Tools to process and analyze deep sequencing data.☆759Jul 23, 2025Updated 9 months ago
- Cutadapt removes adapter sequences from sequencing reads☆578Apr 6, 2026Updated 3 weeks ago
- A fast lossless FASTQ compressor with ultra-high compression ratio☆148May 28, 2025Updated 11 months ago
- Accelerated BLAST compatible local sequence aligner.☆1,287Apr 22, 2026Updated last week
- Ultra-fast and memory-efficient (meta-)genome assembler☆710Oct 28, 2025Updated 6 months ago
- DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.☆3,685Mar 19, 2026Updated last month
- SRA Tools☆1,328Apr 23, 2026Updated last week
- Generate duplex/single consensus reads to reduce sequencing noises and remove duplications☆127Oct 27, 2023Updated 2 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- De novo assembler for single molecule sequencing reads using repeat graphs☆921Apr 3, 2026Updated 3 weeks ago
- hybrid assembly pipeline for bacterial genomes☆639Jul 25, 2024Updated last year
- Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data☆214May 14, 2020Updated 5 years ago
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆877Mar 11, 2026Updated last month
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆669Dec 3, 2022Updated 3 years ago
- bedtools - the swiss army knife for genome arithmetic☆1,029Mar 11, 2025Updated last year
- Fast Whole-Genome Similarity (ANI) Estimation☆454Dec 16, 2025Updated 4 months ago
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆865Apr 20, 2026Updated last week
- A fast and sensitive gapped read aligner☆789Mar 7, 2026Updated last month
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.☆1,061Updated this week
- Scripts to download genomes from the NCBI FTP servers☆1,075Apr 7, 2026Updated 3 weeks ago
- Genome assembly evaluation tool☆509Nov 14, 2024Updated last year
- Strelka2 germline and somatic small variant caller☆393Apr 20, 2026Updated last week
- 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☆543Apr 23, 2026Updated last week