nextflow-io / nextflowLinks
A DSL for data-driven computational pipelines
☆2,946Updated this week
Alternatives and similar repositories for nextflow
Users that are interested in nextflow are comparing it to the libraries listed below
Sorting:
- Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale product…☆1,019Updated this week
- Specification for the Workflow Description Language (WDL).☆814Updated last month
- This is the development home of the workflow management system Snakemake. For general information, see☆2,498Updated this week
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,309Updated last week
- A curated list of nextflow based pipelines☆590Updated 2 years ago
- Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis☆1,005Updated 9 months ago
- Official code repository for GATK versions 4 and up☆1,811Updated this week
- RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.☆1,037Updated this week
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,097Updated this week
- Annotated data.☆627Updated this week
- tools for working with genome variation graphs☆1,201Updated this week
- Toolkit for processing sequences in FASTA/Q formats☆1,466Updated this week
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆807Updated last year
- Cloud-native genomic dataframes and batch computing☆1,005Updated this week
- C library for high-throughput sequencing data formats☆856Updated this week
- Tools (written in C using htslib) for manipulating next-generation sequencing data☆1,731Updated last week
- A curated collection of Nextflow implementation patterns☆359Updated last year
- Bioinformatics containers☆723Updated 3 weeks ago
- Single-cell analysis in Python. Scales to >100M cells.☆2,105Updated this week
- Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊☆1,466Updated 6 months ago
- Data intensive science for everyone.☆1,510Updated this week
- A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.☆1,013Updated this week
- Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight…☆829Updated this week
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆830Updated last week
- Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing☆446Updated this week
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,411Updated last month
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆1,972Updated this week
- scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resourc…☆942Updated this week
- Common Workflow Language reference implementation☆349Updated this week
- Near-optimal RNA-Seq quantification☆686Updated last month