Alternatives and similar repositories for snakemake-wrappers

Users that are interested in snakemake-wrappers are comparing it to the libraries listed below

• askimed / nf-test
  Simple test framework for Nextflow pipelines
  ☆176Updated last week
• nf-core / fetchngs
  Pipeline to fetch metadata and raw FastQ files from public databases
  ☆186Updated 2 weeks ago
• simon-anders / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆129Updated 5 years ago
• daler / gffutils
  GFF and GTF file manipulation and interconversion
  ☆314Updated 2 weeks ago
• saketkc / pysradb
  Package for fetching metadata and downloading data from SRA/ENA/GEO
  ☆348Updated 2 months ago
• GoekeLab / bioinformatics-workflows
  minimal example implementations for bioinformatics workflow managers
  ☆280Updated 4 years ago
• rpetit3 / fastq-dl
  Download FASTQ files from SRA or ENA repositories.
  ☆364Updated last week
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆250Updated this week
• nf-core / test-datasets
  Test data to be used for automated testing with the nf-core pipelines
  ☆150Updated this week
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆257Updated 7 months ago
• linsalrob / fastq-pair
  Match up paired end fastq files quickly and efficiently.
  ☆153Updated last year
• ewels / sra-explorer
  Web application to explore the Sequence Read Archive.
  ☆218Updated 6 months ago
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆323Updated this week
• nf-core / methylseq
  Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark/bwa-meth + MethylDackel or bwa-mem + rastair
  ☆187Updated 2 weeks ago
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆359Updated 9 months ago
• CRG-CNAG / CalliNGS-NF
  GATK RNA-Seq Variant Calling in Nextflow
  ☆138Updated 3 years ago
• timflutre / trimmomatic
  Read trimming tool for Illumina NGS data.
  ☆149Updated 10 years ago
• sequana / sequana
  Sequana: a set of Snakemake NGS pipelines
  ☆152Updated 3 weeks ago
• Ensembl / VEP_plugins
  Plugins for the Ensembl Variant Effect Predictor (VEP)
  ☆165Updated this week
• igvteam / igv-reports
  Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.
  ☆398Updated last week
• gpertea / gffread
  GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more
  ☆457Updated last year
• pcingola / SnpEff
  ☆302Updated 2 weeks ago
• nextflow-io / training
  Nextflow training material
  ☆221Updated this week
• GoekeLab / bambu
  Reference-guided transcript discovery and quantification for long read RNA-Seq data
  ☆224Updated last week
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆219Updated 2 months ago
• The-Sequence-Ontology / Specifications
  GFF and GVF specification documents
  ☆219Updated last year
• fastqe / fastqe
  FASTQ sequence quality visualisation with Emoji
  ☆170Updated last month
• kcleal / gw
  Genome browser and variant annotation
  ☆388Updated 3 months ago
• ablab / IsoQuant
  Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
  ☆202Updated this week
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆259Updated 4 months ago