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
• HadrienG / nanoflow
  De novo assembly of nanopore reads using nextflow
  ☆20Updated 4 years ago
• Yandell-Lab / taxonomer_0.5
  full taxonomer cython repository
  ☆22Updated 5 years ago
• evanfloden / tuxedo-nf
  A Nextflow implementation of the Tuxedo Suite of Tools: HISAT, StringTie & Ballgown
  ☆10Updated 7 years ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆56Updated 3 years ago
• rioualen / gene-regulation
  Precursor to SnakeChunks, see https://github.com/SnakeChunks/SnakeChunks. This project has moved and will no longer be edited here.
  ☆11Updated 7 years ago
• tommyau / bamclipper
  Remove primer sequence from BAM alignments by soft-clipping
  ☆31Updated 5 years ago
• peterk87 / sublime-nextflow
  Nextflow workflow syntax highlighting and snippets for Sublime Text 4
  ☆24Updated 4 months ago
• Clinical-Genomics / chanjo
  Chanjo provides a better way to analyze coverage data in clinical sequencing.
  ☆50Updated 5 months ago
• jkbonfield / crumble
  Exploration of controlled loss of quality values for compressing CRAM files
  ☆34Updated 2 years ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆29Updated 9 months ago
• dkoslicki / MetaPalette
  Metagenomic profiling and phylogenetic distances via common kmers
  ☆42Updated 3 years ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated 2 years ago
• NBISweden / wgs-structvar
  Whole Genome Sequenceing Structural Variation Pipelines
  ☆16Updated 6 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
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• telatin / covtobed
  ⛰ covtobed | Convert the coverage track from a BAM file into a BED file
  ☆44Updated 3 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated last year
• kevlar-dev / kevlar
  Reference-free variant discovery in large eukaryotic genomes
  ☆41Updated 3 years ago
• ryanlayer / svv
  Stupid Simple Structural Variant View
  ☆25Updated 8 years ago
• biocorecrg / BioNextflow
  A collection of modules and sub-workflows for Nextflow
  ☆26Updated last week
• metalhelix / pipette
  variant discovery and annotation using GATK and Ensembl
  ☆17Updated 11 years ago
• nextflow-io / nf-hack18
  Nextflow workshop 2018 -- Training pages -> https://nextflow-io.github.io/nf-hack18/
  ☆18Updated 6 years ago
• COMBINE-lab / RapClust
  Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes
  ☆31Updated 11 months ago
• bergmanlab / ngs_te_mapper
  Software for detecting transposable element insertions from next-generation sequencing data
  ☆14Updated 4 years ago
• AstraZeneca-NGS / simple_sv_annotation
  Simplify snpEff annotations for interesting cases
  ☆22Updated 6 years ago
• lh3 / rtgeval
  Wrapper for RTG's vcfeval; DEPRECATED!
  ☆21Updated 9 years ago
• paudano / kestrel
  Mapping-free variant caller for short-read Illumina data
  ☆19Updated 5 years ago
• vibansal / hapcut
  program for haplotype phasing from sequence reads and related tools
  ☆25Updated 6 years ago
• elsiklab / multibigwig
  A JBrowse plugin for plotting multiple bigwig subtracks
  ☆12Updated 3 years ago