Alternatives and similar repositories for cookiecutter-snakemake-analysis-pipeline

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

• hammerlab / bai-indexer
  Build an index for your BAM Index (BAI)
  ☆17Updated 10 years ago
• seqeralabs / nf-training-advanced
  Customer workshop materials
  ☆18Updated 2 years ago
• bionitio-team / bionitio-python
  Demonstrating best practices for bioinformatics command line tools
  ☆26Updated 5 years ago
• nh13 / snakeparse
  Making Snakemake workflows into full-fledged command line tools since 1999.
  ☆51Updated 7 years ago
• InscriptaLabs / BioCantor
  ☆22Updated 2 years ago
• brentp / geneimpacts
  prioritize effects of variant annotations from VEP, SnpEff, et al.
  ☆34Updated last year
• roryk / bcbio.rnaseq
  Mostly deprecated in favor of : https://github.com/hbc/bcbioRNASeq. Quality control, differential gene/transcript expression and pathway …
  ☆24Updated 8 years ago
• ctb / 2019-snakemake-ucdavis
  Intro to workflows for efficient automated data analysis, using snakemake.
  ☆32Updated 6 years ago
• fomightez / sequencework
  programs and scripts, mainly python, for analyses related to nucleic or protein sequences
  ☆24Updated last month
• markrobinsonuzh / CrispRVariants
  ☆26Updated 5 years ago
• clintval / cvbio
  Artisanal 🤣 bioinformatics tools and pipelines in Scala
  ☆20Updated 5 years ago
• Snakemake-Profiles / doc
  Documentation of the Snakemake-Profiles project.
  ☆54Updated 3 years ago
• seandavi / GFFutils
  Convert, explore, and manipulate GFF and GTF files (used in bioinformatics) using a sqlite-based approach
  ☆36Updated 14 years ago
• seandavi / SRAdbV2
  R Interface to the NCBI SRA metadata
  ☆23Updated 7 years ago
• karel-brinda / smbl
  SMBL - SnakeMake Bioinformatics Library. Automatic installation of bioinformatics software in your SnakeMake pipelines.
  ☆23Updated 8 years ago
• aquaskyline / Skyhawk
  An Artificial Neural Network-based discriminator for validating clinically significant genomic variants
  ☆35Updated last year
• goeckslab / isoseq-browser
  ☆13Updated 8 years ago
• BenLangmead / qtip
  Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities
  ☆25Updated 6 years ago
• AstraZeneca-NGS / simple_sv_annotation
  Simplify snpEff annotations for interesting cases
  ☆22Updated 6 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated last year
• gogetdata / ggd-cli
  The command-line interface to GGD
  ☆43Updated 3 years ago
• dnanexus-archive / dx-cwl
  Import and run CWL workflows on DNAnexus (alpha)
  ☆13Updated 7 years ago
• jamesware / alleleFrequencyApp
  Allele frequency filter app
  ☆14Updated 3 years ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆55Updated 4 years ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆30Updated last year
• churchill-lab / emase
  Expectation-Maximization algorithm for Allele-Specific Expression
  ☆21Updated 2 years ago
• drio / bio.brew
  A tiny package manager for crucial unix and bioinformatics tools
  ☆27Updated 10 years ago
• kkdey / aRchaic
  Exploration, clustering, visualization and classification of DNA damage patterns
  ☆19Updated 4 years ago
• ruolin / strawberry
  A program for fast and accurate genome-guided transcripts reconstruction and quantification from RNA-seq (Supporting Pacbio single-end)
  ☆24Updated 4 years ago
• pachterlab / sleuth_paper_analysis
  Code to reproduce analyses from the sleuth paper
  ☆16Updated 7 years ago