Alternatives and similar repositories for snk

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

• beardymcjohnface / Snaketool
  Cookiecutter profile for making a Snakemake-based bioinformatics tool, but without the fluff
  ☆50Updated last year
• ArcInstitute / xsra
  An efficient CLI to extract sequences from the SRA
  ☆105Updated 3 weeks ago
• jonas-fuchs / BAMdash
  create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks
  ☆52Updated 2 weeks ago
• alignoth / alignoth
  Creating alignment plots from bam files
  ☆65Updated last week
• vembrane / vembrane
  vembrane filters VCF records using python expressions
  ☆59Updated last week
• nf-core / readsimulator
  A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
  ☆31Updated 3 weeks ago
• bede / deacon
  Fast (host) DNA sequence filtering
  ☆60Updated this week
• nf-core / detaxizer
  A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Remo…
  ☆20Updated 2 weeks ago
• telatin / covtobed
  ⛰ covtobed | Convert the coverage track from a BAM file into a BED file
  ☆44Updated last week
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆58Updated 11 months ago
• citiususc / BigSeqKit
  BigSeqKit: a parallel Big Data toolkit to process FASTA and FASTQ files at scale
  ☆55Updated last year
• fmalmeida / MpGAP
  Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads
  ☆59Updated 9 months ago
• mahesh-panchal / nf-cascade
  A proof of concept daisy-chaining Nextflow workflows
  ☆26Updated last month
• rhpvorderman / sequali
  Fast sequencing data quality metrics
  ☆26Updated 3 weeks ago
• bentsherman / nf-boost
  Experimental features for Nextflow
  ☆43Updated 3 months ago
• cpockrandt / PhyloCSFpp
  PhyloCSF++ computes PhyloCSF tracks for whole-genome multiple sequence alignments, scores single MSA, annotates CDS features in GFF/GTF f…
  ☆31Updated 3 years ago
• mrvollger / SmkTemplate
  A template repository for snakemake workflows.
  ☆38Updated 7 months ago
• Psy-Fer / blue-crab
  lossless nanopore pod5 <=> s/blow5 file conversion
  ☆40Updated 2 months ago
• bioforensics / pytaxonkit
  Python bindings for the TaxonKit library
  ☆41Updated last month
• nickp60 / fcid
  ☆21Updated last year
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆25Updated 2 years ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆47Updated 6 months ago
• aaronmussig / PhyloDM
  Efficient calculation of phylogenetic distance matrices.
  ☆48Updated 8 months ago
• mribeirodantas / NextflowSnippets
  This repository hosts a large collection of Nextflow snippets
  ☆57Updated 5 months ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆29Updated 11 months ago
• balabanmetin / apples
  distance based phylogenetic placement
  ☆27Updated last year
• epi2me-labs / fastcat
  Simple utility to concatenate .fastq(.gz) files whilst creating a summary of the sequences.
  ☆38Updated 3 months ago
• nextflow-io / nf-schema
  Functionality for working with pipeline and sample sheet schema files in Nextflow pipelines
  ☆42Updated last month
• fulcrumgenomics / fqtk
  Fast FASTQ sample demultiplexing in Rust.
  ☆62Updated last month
• PedroMTQ / mantis
  A package to annotate protein sequences
  ☆58Updated 4 months ago