Alternatives and similar repositories for cookiecutter-snakemake-workflow

Users that are interested in cookiecutter-snakemake-workflow are comparing it to the libraries listed below

• panoptes-organization / panoptes
  Monitor computational workflows in real time
  ☆73Updated 11 months ago
• sequana / sequana
  Sequana: a set of Snakemake NGS pipelines
  ☆146Updated 2 months ago
• refgenie / refgenie
  Reference genome resource manager
  ☆76Updated last year
• Snakemake-Profiles / doc
  Documentation of the Snakemake-Profiles project.
  ☆53Updated 3 years ago
• bionitio-team / bionitio
  Demonstrating best practices for bioinformatics command line tools
  ☆116Updated 4 years ago
• ncbi / pm4ngs
  Project Manager for NGS data analysis
  ☆30Updated 2 years ago
• snakemake-workflows / snakemake-workflow-template
  A template for standard compliant snakemake-workflows
  ☆96Updated last week
• enasequence / enaBrowserTools
  A collection of scripts to assist in the retrieval of data from the ENA Browser
  ☆81Updated last year
• gogetdata / ggd-recipes
  conda recipes for genomic data
  ☆85Updated 3 years ago
• BioContainers / multi-package-containers
  Testing building mulled containers for multi-requirement tools.
  ☆72Updated this week
• jsh58 / NGmerge
  Merging paired-end reads and removing adapters
  ☆44Updated 2 months ago
• marcelm / dnaio
  Efficiently read and write sequencing data from Python
  ☆63Updated last month
• jdidion / atropos
  An NGS read trimming tool that is specific, sensitive, and speedy. (production)
  ☆121Updated 2 weeks ago
• NCBI-Hackathons / TheHumanPangenome
  A Strategy for Building and Using a Human Reference Pangenome
  ☆70Updated 4 years ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 3 months ago
• nf-core / airrflow
  B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
  ☆60Updated 2 weeks ago
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆79Updated 4 months ago
• LukeGoodsell / nextflow-vim
  Nextflow plugin for VIM
  ☆50Updated last year
• compbiocore / VariantVisualization.jl
  Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:
  ☆86Updated last year
• dputhier / pygtftk
  A python package and a set of shell commands to handle GTF files
  ☆48Updated 10 months ago
• PMCC-BioinformaticsCore / janis
  [Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows
  ☆43Updated last year
• MultiQC / test-data
  Test data for MultiQC.
  ☆22Updated 2 weeks ago
• Clinical-Genomics / MIP
  Mutation Identification Pipeline. Read the latest documentation:
  ☆44Updated last year
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆107Updated 10 months ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆96Updated last year
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆140Updated last month
• grst / snakemake_nextflow_wdl
  simple comparison of snakemake, nextflow and cromwell/wdl
  ☆49Updated 4 years ago
• Gaius-Augustus / MakeHub
  Fully automated generation of UCSC assembly hubs
  ☆34Updated 7 months ago
• IARCbioinfo / BAM-tricks
  Tip and tricks for BAM files
  ☆85Updated 6 years ago
• nf-core / configs
  Config files used to define parameters specific to compute environments at different Institutions
  ☆99Updated this week