Alternatives and similar repositories for cookiecutter:

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

• cbcrg / kallisto-nf
  A nextflow implementation of Kallisto & Sleuth RNA-Seq Tools
  ☆22Updated 6 years ago
• evanfloden / tuxedo-nf
  A Nextflow implementation of the Tuxedo Suite of Tools: HISAT, StringTie & Ballgown
  ☆10Updated 6 years ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆29Updated 7 months ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆56Updated 3 years ago
• biocorecrg / BioNextflow
  A collection of modules and sub-workflows for Nextflow
  ☆26Updated this week
• metalhelix / pipette
  variant discovery and annotation using GATK and Ensembl
  ☆17Updated 11 years ago
• HadrienG / nanoflow
  De novo assembly of nanopore reads using nextflow
  ☆20Updated 4 years ago
• robsyme / nextflow-annotate
  Workflows I find helpful for fungal genome annotation
  ☆20Updated last year
• Molmed / checkQC
  CheckQC inspects the content of an Illumina runfolder and determines if it passes a set of quality criteria
  ☆27Updated 2 weeks ago
• scottgigante / picopore
  A tool to reduce the size of Oxford Nanopore Technologies' datasets without losing information
  ☆31Updated last year
• nickloman / poredb
  ☆19Updated 8 years ago
• mattloose / RUscripts
  Scripts for implementing read until and other examples.
  ☆31Updated 5 years ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated last year
• jkbonfield / crumble
  Exploration of controlled loss of quality values for compressing CRAM files
  ☆34Updated 2 years ago
• dkoslicki / MetaPalette
  Metagenomic profiling and phylogenetic distances via common kmers
  ☆42Updated 3 years ago
• s-andrews / BamQC
  Mapped QC analysis program
  ☆43Updated 6 years ago
• ChristopherWilks / snaptron
  fast webservices based query tool for large sets of genomic features
  ☆25Updated 2 years ago
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆47Updated 6 years ago
• grenaud / deML
  Maximum likelihood demultiplexing
  ☆46Updated last month
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆37Updated 5 years ago
• Clinical-Genomics / chanjo
  Chanjo provides a better way to analyze coverage data in clinical sequencing.
  ☆50Updated 3 months ago
• ad3002 / Cookiecutter
  ☆16Updated 8 years ago
• peterk87 / sublime-nextflow
  Nextflow workflow syntax highlighting and snippets for Sublime Text 4
  ☆24Updated 2 months ago
• tk2 / RetroSeq
  RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…
  ☆65Updated 2 years ago
• ssadedin / ximmer
  Ximmer is a system for CNV calling on exome and targeted genomic sequencing
  ☆19Updated last month
• NBISweden / wgs-structvar
  Whole Genome Sequenceing Structural Variation Pipelines
  ☆16Updated 5 years ago
• Yandell-Lab / taxonomer_0.5
  full taxonomer cython repository
  ☆22Updated 5 years ago
• ljdursi / mergevcf
  Python package and routines for merging VCF files
  ☆29Updated 3 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• xuchang116 / smCounter
  smCounter: a versatile UMI-aware variant caller to detect both somatic and germline SNVs and indels. Published in article "Detecting very…
  ☆20Updated 5 years ago