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
  ☆37Updated 3 months ago
• ncbi / docker
  ☆54Updated last week
• IQTLabs / squiggle
  📈 DNA Sequence Visualization for Humans
  ☆41Updated 4 years ago
• bio-tools / biotoolsRegistry
  biotoolsregistry : discovery portal for bioinformatics
  ☆79Updated last week
• MonashBioinformaticsPlatform / bio-ansible
  Proof of concept to use ansible + Lmod to deploy a bioinformatics server
  ☆24Updated 2 months ago
• churchlab / millstone
  Genome engineering and analysis software
  ☆48Updated 3 years ago
• bcgsc / orca
  Genomics Research Container Architecture
  ☆48Updated 5 years ago
• ga4gh-discovery / data-connect
  Standard for describing and searching biomedical data developed by the Global Alliance for Genomics & Health.
  ☆24Updated last year
• jdrudolph / uniprot
  command-line and python interface to the uniprot database
  ☆10Updated 10 years ago
• ababaian / bioFreelancers
  Freelance bioinformaticians directory
  ☆9Updated 2 years ago
• workflux / workflUX
  An open-source, cloud-ready web application for simplified deployment of big data workflows.
  ☆33Updated 2 months ago
• nextstrain / auspice.us
  ☆13Updated 3 weeks ago
• ga4gh / task-execution-schemas
  ☆89Updated 2 months ago
• snakemake-workflows / cookiecutter-snakemake-workflow
  A cookiecutter template for Snakemake workflows
  ☆59Updated 3 years ago
• cjlee112 / pygr
  Python graph database framework for bioinformatics
  ☆93Updated 3 years ago
• FRED-2 / Fred2
  Python-based framework for computational immunomics
  ☆40Updated 4 years ago
• iobio / iobio.viz
  Visualization and charting JS library for streaming genomic data
  ☆19Updated 8 months ago
• clindet / rctl
  A set of command line tools based on R and JavaScript.
  ☆18Updated 5 years ago
• 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
• dnanexus / dxWDL
  Workflow Description Language compiler for the DNAnexus platform
  ☆41Updated 2 years ago
• gogetdata / ggd-cli
  The command-line interface to GGD
  ☆43Updated 2 years ago
• genepattern / genepattern-notebook
  Platform for integrating genomic analysis with Jupyter Notebooks.
  ☆44Updated 2 weeks ago
• elixir-europe / BioHackathon
  Repository with information about the BioHackathon hosted in Paris in Nov 2018
  ☆28Updated 4 years ago
• UMCUGenetics / NextflowModules
  UMCU Genetics Nextflow modules
  ☆28Updated 9 months ago
• ga4gh / workflow-execution-service-schemas
  The WES API is a standard way to run and manage portable workflows.
  ☆85Updated last week
• aws-quickstart / quickstart-illumina-dragen
  AWS Quick Start Team
  ☆24Updated 10 months ago
• DataBiosphere / terra-docker
  ☆30Updated last week
• snakemake / snakemake-workflow-catalog
  A statically generated catalog of available Snakemake workflows
  ☆35Updated last week
• c3g / GenPipes_Docs
  GenPipes Read the Docs repository
  ☆23Updated this week