Pipeline to fetch metadata and raw FastQ files from public databases
☆189Apr 29, 2026Updated this week
Alternatives and similar repositories for fetchngs
Users that are interested in fetchngs are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- (Meta-)genome screening for functional and natural product gene sequences☆105Apr 24, 2026Updated last week
- Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data☆184Apr 20, 2026Updated last week
- Assembly and binning of metagenomes☆290Apr 22, 2026Updated last week
- A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Remo…☆24Nov 20, 2025Updated 5 months ago
- Converts bam or cram files to fastq format and does quality control.☆31Updated this week
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Demultiplexing pipeline for sequencing data☆54Updated this week
- Amplicon sequencing analysis workflow using DADA2 and QIIME2☆244Updated this week
- A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.☆34Jun 3, 2025Updated 10 months ago
- Nanopore demultiplexing, QC and alignment pipeline☆225Nov 20, 2025Updated 5 months ago
- A pipeline to investigate horizontal gene transfer from NGS data☆26Nov 20, 2025Updated 5 months ago
- Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing☆563Apr 21, 2026Updated last week
- rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis☆63Jun 3, 2025Updated 10 months ago
- A pipeline to run and systematically evaluate Multiple Sequence Alignment (MSA) methods.☆40Nov 20, 2025Updated 5 months ago
- Repository to host tool-specific module files for the Nextflow DSL2 community!☆413Updated this week
- 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.
- A pipeline for the analysis of CRISPR edited data. It allows the evaluation of the quality of gene editing experiments using targeted nex…☆57Mar 6, 2026Updated last month
- Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq☆92Updated this week
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆64Updated this week
- RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.☆1,271Updated this week
- Download FASTQ files from SRA or ENA repositories.☆385Feb 1, 2026Updated 3 months ago
- ☆13Jan 23, 2020Updated 6 years ago
- Simple bacterial assembly and annotation pipeline☆85Updated this week
- Short idioms and patterns for transforming, merging and managing files and channels in Nextflow.☆17Jul 27, 2025Updated 9 months ago
- Analysis pipeline for the identification of viral integration events in genomes using a chimeric read approach.☆18Jun 3, 2025Updated 10 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- GitHub Action to launch a workflow using Nextflow Tower.☆12Mar 28, 2023Updated 3 years ago
- Parallelised and automated construction of metagenomic classifier databases of different tools☆21Updated this week
- ATAC-seq peak-calling and QC analysis pipeline☆223Apr 20, 2026Updated last week
- Package for fetching metadata and downloading data from SRA/ENA/GEO☆355Dec 9, 2025Updated 4 months ago
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆14Jun 12, 2024Updated last year
- Assembly and intrahost/low-frequency variant calling for viral samples☆160Updated this week
- TAXnomic Profile Aggregation and STAndardisation☆42Nov 18, 2025Updated 5 months ago
- Quickly calculate and visualize sequence coverage in alignment files☆100Jun 22, 2019Updated 6 years ago
- Renders a collection of sequences into a pangenome graph. https://doi.org/10.1093/bioinformatics/btae609.☆105Updated this week
- 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.
- seqfu - Sequece Fastx Utilities☆126Apr 17, 2026Updated 2 weeks ago
- Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-dropl…☆323Mar 25, 2026Updated last month
- Nextflow plugin implementation skeleton