snakemake / snakemake-github-action

Related projects ⓘ

Alternatives and complementary repositories for snakemake-github-action

• grst / nxfvars
  Access nextflow variables from python scripts or notebooks
  ☆21Updated 3 years ago
• snakemake-workflows / snakemake-workflow-template
  A template for standard compliant snakemake-workflows
  ☆89Updated last year
• Snakemake-Profiles / lsf
  Snakemake profile for running jobs on an LSF cluster
  ☆36Updated 3 months ago
• BioContainers / multi-package-containers
  Testing building mulled containers for multi-requirement tools.
  ☆69Updated last week
• snakemake / snakeface
  The snakemake interface, currently works like a notebook (under development)
  ☆18Updated 2 years ago
• mrvollger / SmkTemplate
  A template repository for snakemake workflows.
  ☆35Updated 9 months ago
• manzt / pygv
  a minimal, scriptable genome browser for python
  ☆48Updated 6 months ago
• Midnighter / nextflow-gotchas
  A collection of unexpected challenges and learnings with nextflow and nf-core.
  ☆34Updated last year
• zavolanlab / zarp
  The Zavolab Automated RNA-seq Pipeline
  ☆35Updated last week
• jordanlab / tagore
  The script presents a simple way to visualize features on human chromosome ideograms
  ☆39Updated last year
• vembrane / vembrane
  vembrane filters VCF records using python expressions
  ☆57Updated last month
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆32Updated 3 years ago
• seqeralabs / tower-cli
  Nextflow Tower CLI tool
  ☆42Updated this week
• brentp / tiwih
  simple bioinformatics command-line (t)ools (i) (w)ished (i) (h)ad.
  ☆44Updated last year
• seqeralabs / wave-showcase
  Examples showing how to configure Nextflow to run with Wave containers provisioning service
  ☆19Updated last week
• seqeralabs / seqera-kit
  Python implementation and field-tool for automated pipeline launching through Tower CLI (beta)
  ☆25Updated 2 weeks ago
• nextflow-io / vscode-language-nextflow
  Nextflow language support for Visual Studio Editor
  ☆29Updated this week
• Clinical-Genomics / BALSAMIC
  Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
  ☆45Updated 2 weeks ago
• salmonteam / SalmonBlogResponse
  Response to blog post about Salmon
  ☆37Updated 7 years ago
• fulcrumgenomics / python-snakemake-template
  A template repository for Snakemake pipepline(s) and a python command-line toolkit.
  ☆27Updated last month
• broadinstitute / fiss
  FireCloud Service Selector (FISS) -- Python bindings and CLI for FireCloud execution engine
  ☆29Updated 7 months ago
• nh13 / snakeparse
  Making Snakemake workflows into full-fledged command line tools since 1999.
  ☆51Updated 6 years ago
• brentp / cigar
  simple library for dealing with SAM cigar strings
  ☆40Updated 3 years ago
• jackh726 / bigtools
  A high-performance BigWig and BigBed library in Rust
  ☆70Updated this week
• deto / Snakemake_Tutorial
  A short tutorial on getting started with Snakemake for workflow management
  ☆48Updated 5 years ago
• mlafave / sam2pairwise
  sam2pairwise takes a SAM file and uses the CIGAR and MD tag to reconstruct the pairwise alignment of each read.
  ☆42Updated 9 years ago
• nextflow-io / nf-validation
  Params validation plugin for Nextflow pipelines
  ☆48Updated 3 months ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆92Updated 7 months ago
• Clinical-Genomics / MIP
  Mutation Identification Pipeline. Read the latest documentation:
  ☆44Updated 8 months ago
• snakemake / snakedeploy
  deploy a snakemake pipeline directly from version control (under development)
  ☆21Updated this week