Alternatives and similar repositories for cli

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

• bio-tools / biotoolsRegistry
  biotoolsregistry: discovery portal for bioinformatics
  ☆82Updated this week
• nextstrain / ncov-ingest
  A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV…
  ☆37Updated last week
• workflux / workflUX
  An open-source, cloud-ready web application for simplified deployment of big data workflows.
  ☆36Updated 8 months ago
• aCLImatise / CliHelpParser
  Reads the output from CLI help commands, and generates machine readable schemas (CWL etc)
  ☆15Updated 4 years ago
• ga4gh-discovery / data-connect
  Standard for describing and searching biomedical data developed by the Global Alliance for Genomics & Health.
  ☆24Updated 2 years ago
• snakemake-workflows / cookiecutter-snakemake-workflow
  A cookiecutter template for Snakemake workflows
  ☆60Updated 4 years ago
• MonashBioinformaticsPlatform / bio-ansible
  Proof of concept to use ansible + Lmod to deploy a bioinformatics server
  ☆24Updated 8 months ago
• ncbi / magicblast
  ☆36Updated 9 months ago
• ncbi / docker
  ☆54Updated 2 weeks ago
• dnanexus / dxWDL
  Workflow Description Language compiler for the DNAnexus platform
  ☆42Updated 2 years ago
• churchlab / millstone
  Genome engineering and analysis software
  ☆46Updated 3 years ago
• galaxyproject / SARS-CoV-2
  Ongoing analysis of COVID-19 using Galaxy, BioConda and public research infrastructures
  ☆127Updated 3 years ago
• research-software-ecosystem / content
  A metadata commons to store research software metadata
  ☆46Updated this week
• cjlee112 / pygr
  Python graph database framework for bioinformatics
  ☆95Updated 4 years ago
• FRED-2 / Fred2
  Python-based framework for computational immunomics
  ☆40Updated 4 years ago
• c3g / GenPipes_Docs
  GenPipes Read the Docs repository
  ☆22Updated last month
• galaxyproject / cloudlaunch
  Easily launch cloud applications.
  ☆42Updated last year
• dnanexus / wdlTools
  WDL tools for parsing, type-checking, and more
  ☆28Updated 5 months ago
• BioContainers / registry
  Docker for Bioinformatics
  ☆20Updated 2 weeks ago
• inab / WfExS-backend
  Workflow Execution Service Backend
  ☆20Updated this week
• audy / bioinformatics-hacks
  Scripts for miscelleneous bioinformatics tasks
  ☆49Updated 5 years ago
• bcgsc / orca
  Genomics Research Container Architecture
  ☆48Updated 6 years ago
• miniwdl-ext / miniwdl-aws
  Extends miniwdl to run workflows on AWS Batch & EFS
  ☆22Updated 2 years ago
• EliLillyCo / pytest-wdl
  WDL plugin for pytest
  ☆49Updated 2 years ago
• iobio / vcf.iobio.io
  ☆28Updated 4 months ago
• IQTLabs / squiggle
  📈 DNA Sequence Visualization for Humans
  ☆42Updated 4 years ago
• nextstrain / auspice.us
  ☆13Updated 2 months ago
• ababaian / bioFreelancers
  Freelance bioinformaticians directory
  ☆10Updated 2 years ago
• mentatpsi / KEGG-Crawler
  A parallel API crawler for the retrieval of Kyoto Encyclopedia of Genes and Genomes metabolic and genomics data.
  ☆21Updated 2 years ago
• fikipollo / paintomics3
  Integrative visualization of multiple omic datasets onto KEGG pathways.
  ☆11Updated 4 years ago