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
  ☆74Updated last year
• Snakemake-Profiles / doc
  Documentation of the Snakemake-Profiles project.
  ☆54Updated 3 years ago
• refgenie / refgenie
  Reference genome resource manager
  ☆75Updated last year
• snakemake-workflows / dna-seq-varlociraptor
  A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, …
  ☆87Updated 3 weeks ago
• PMCC-BioinformaticsCore / janis
  [Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows
  ☆44Updated last year
• jdidion / atropos
  An NGS read trimming tool that is specific, sensitive, and speedy. (production)
  ☆122Updated 3 months ago
• nf-core / configs
  Config files used to define parameters specific to compute environments at different Institutions
  ☆103Updated this week
• stevetsa / awesome-microbes
  List of computational resources for analyzing microbial sequencing data.
  ☆68Updated 2 months ago
• sequana / sequana
  Sequana: a set of Snakemake NGS pipelines
  ☆146Updated last month
• BioContainers / multi-package-containers
  Testing building mulled containers for multi-requirement tools.
  ☆76Updated this week
• grst / snakemake_nextflow_wdl
  simple comparison of snakemake, nextflow and cromwell/wdl
  ☆50Updated 5 years ago
• brentp / fishers_exact_test
  Fishers Exact Test for Python (Cython)
  ☆66Updated 5 months ago
• marcelm / dnaio
  Efficiently read and write sequencing data from Python
  ☆66Updated 3 months ago
• dputhier / pygtftk
  A python package and a set of shell commands to handle GTF files
  ☆49Updated last year
• gogetdata / ggd-recipes
  conda recipes for genomic data
  ☆85Updated 4 years ago
• ngsutils / ngsutils
  Tools for next-generation sequencing analysis
  ☆89Updated 6 years ago
• MultiQC / test-data
  Test data for MultiQC.
  ☆22Updated last week
• ewels / clusterflow
  A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.
  ☆97Updated 2 years ago
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• jsh58 / NGmerge
  Merging paired-end reads and removing adapters
  ☆46Updated 5 months ago
• seppinho / mutserve
  mtDNA Variant Caller
  ☆34Updated 8 months ago
• gogetdata / ggd-cli
  The command-line interface to GGD
  ☆43Updated 2 years ago
• zavolanlab / zarp
  The Zavolab Automated RNA-seq Pipeline
  ☆35Updated last month
• nextflow-io / vscode-language-nextflow
  Nextflow language support for Visual Studio Editor
  ☆34Updated last week
• gatk-workflows / seq-format-conversion
  Workflows for converting between sequence data formats
  ☆38Updated 3 years ago
• nf-core / airrflow
  B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
  ☆67Updated 2 weeks ago
• compbiocore / VariantVisualization.jl
  Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:
  ☆86Updated 2 years ago
• stevekm / nextflow-demos
  Example Nextflow pipelines and programming techniques
  ☆107Updated 3 months ago
• enasequence / enaBrowserTools
  A collection of scripts to assist in the retrieval of data from the ENA Browser
  ☆88Updated 3 weeks ago
• harvardinformatics / NGmerge
  Merging paired-end reads and removing adapters
  ☆30Updated 5 years ago