Alternatives and similar repositories for cromwell

Users that are interested in cromwell are comparing it to the libraries listed below

• openwdl / wdl
  Specification for the Workflow Description Language (WDL).
  ☆841Updated last week
• hail-is / hail
  Cloud-native genomic dataframes and batch computing
  ☆1,045Updated this week
• arvados / arvados
  An open source platform for managing and analyzing biomedical big data
  ☆415Updated last week
• nextflow-io / awesome-nextflow
  A curated list of nextflow based pipelines
  ☆619Updated 6 months ago
• broadinstitute / gatk
  Official code repository for GATK versions 4 and up
  ☆1,898Updated this week
• bcbio / bcbio-nextgen
  Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
  ☆1,024Updated last year
• igvteam / igv
  Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations
  ☆712Updated this week
• broadgsa / gatk
  Official code repository for GATK versions 1.0 through 3.7 (core engine). For GATK 4 code, see the https://github.com/broadinstitute/gatk…
  ☆299Updated 7 years ago
• broadinstitute / picard
  A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
  ☆1,045Updated 2 weeks ago
• projectglow / glow
  An open-source toolkit for large-scale genomic analysis
  ☆293Updated last week
• bigdatagenomics / adam
  ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 li…
  ☆1,043Updated 6 months ago
• nextflow-io / patterns
  A curated collection of Nextflow implementation patterns
  ☆367Updated 2 years ago
• BioContainers / containers
  Bioinformatics containers
  ☆769Updated 2 months ago
• samtools / htsjdk
  A Java API for high-throughput sequencing data (HTS) formats.
  ☆293Updated last week
• nextflow-io / nextflow
  A DSL for data-driven computational pipelines
  ☆3,264Updated this week
• samtools / htslib
  C library for high-throughput sequencing data formats
  ☆900Updated last month
• common-workflow-language / cwltool
  Common Workflow Language reference implementation
  ☆361Updated this week
• samtools / hts-specs
  Specifications of SAM/BAM and related high-throughput sequencing file formats
  ☆695Updated 2 months ago
• samtools / samtools
  Tools (written in C using htslib) for manipulating next-generation sequencing data
  ☆1,819Updated this week
• pysam-developers / pysam
  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…
  ☆875Updated last week
• arq5x / bedtools2
  bedtools - the swiss army knife for genome arithmetic
  ☆1,020Updated 10 months ago
• lh3 / bwa
  Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
  ☆1,693Updated 9 months ago
• fulcrumgenomics / fgbio
  Tools for working with genomic and high throughput sequencing data.
  ☆350Updated last week
• MultiQC / MultiQC
  Aggregate results from bioinformatics analyses across many samples into a single report.
  ☆1,408Updated this week
• shenwei356 / seqkit
  A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
  ☆1,498Updated last week
• Illumina / hap.py
  Haplotype VCF comparison tools
  ☆455Updated 2 years ago
• freebayes / freebayes
  Bayesian haplotype-based genetic polymorphism discovery and genotyping.
  ☆860Updated 7 months ago
• samtools / bcftools
  This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.gith…
  ☆835Updated last month
• lindenb / jvarkit
  Java utilities for Bioinformatics
  ☆515Updated last month
• Ensembl / ensembl-vep
  The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants
  ☆523Updated last week