Alternatives and similar repositories for cli

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

• 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 3 weeks ago
• ncbi / magicblast
  ☆36Updated 7 months ago
• ncbi / docker
  ☆53Updated 3 months ago
• churchlab / millstone
  Genome engineering and analysis software
  ☆47Updated 3 years ago
• FRED-2 / Fred2
  Python-based framework for computational immunomics
  ☆40Updated 4 years ago
• workflux / workflUX
  An open-source, cloud-ready web application for simplified deployment of big data workflows.
  ☆34Updated 6 months ago
• ga4gh-discovery / data-connect
  Standard for describing and searching biomedical data developed by the Global Alliance for Genomics & Health.
  ☆24Updated last year
• bio-tools / biotoolsRegistry
  biotoolsregistry: discovery portal for bioinformatics
  ☆81Updated 2 weeks ago
• MonashBioinformaticsPlatform / bio-ansible
  Proof of concept to use ansible + Lmod to deploy a bioinformatics server
  ☆24Updated 5 months ago
• snakemake-workflows / cookiecutter-snakemake-workflow
  A cookiecutter template for Snakemake workflows
  ☆60Updated 3 years ago
• Edinburgh-Genome-Foundry / BandWagon
  🎺 Plot DNA digestion band patterns with Python
  ☆20Updated 6 months ago
• IQTLabs / squiggle
  📈 DNA Sequence Visualization for Humans
  ☆42Updated 4 years ago
• EBISPOT / goci
  GWAS Catalog Ontology and Curation Infrastructure
  ☆26Updated last month
• bioinformatics-core-shared-training / Managing-your-research-data
  Course on good principles & practices in Data Management (https://tinyurl.com/cruk-myrd)
  ☆18Updated 2 years ago
• c3g / GenPipes_Docs
  GenPipes Read the Docs repository
  ☆22Updated this week
• dnanexus / dxWDL
  Workflow Description Language compiler for the DNAnexus platform
  ☆42Updated 2 years ago
• aCLImatise / CliHelpParser
  Reads the output from CLI help commands, and generates machine readable schemas (CWL etc)
  ☆15Updated 4 years ago
• dnanexus / wdlTools
  WDL tools for parsing, type-checking, and more
  ☆27Updated 2 months ago
• bcgsc / orca
  Genomics Research Container Architecture
  ☆48Updated 6 years ago
• ga4gh / task-execution-schemas
  ☆92Updated last month
• bioconda / bioconda-utils
  Utilities for building and managing bioconda recipes
  ☆103Updated 3 weeks ago
• scikit-bio / scikit-bio-cookbook
  Recipes for bioinformatics analyses with scikit-bio
  ☆42Updated 2 months ago
• ababaian / bioFreelancers
  Freelance bioinformaticians directory
  ☆10Updated 2 years ago
• clindet / rctl
  A set of command line tools based on R and JavaScript.
  ☆18Updated 5 years ago
• yakneens / butler
  Butler is a framework for running scientific workflows on public and academic clouds.
  ☆69Updated 5 years ago
• keoughkath / AlleleAnalyzer
  A software tool for personalized and allele-specific CRISPR editing.
  ☆18Updated 3 years ago
• ncbi / cwl-ngs-workflows-cbb
  A set of CWL tools and workflows used by NCBI Computational Biology Branch for NGS data analysis
  ☆24Updated 3 months ago
• research-software-ecosystem / content
  A metadata commons to store research software metadata
  ☆44Updated last week
• biosql / biosql
  ☆91Updated 6 years ago
• phageParser / phageParser
  A project to extract CRISPR information from open genetic data.
  ☆112Updated 5 years ago