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
  ☆156Updated 2 months ago
• rpetit3 / fastq-dl
  Download FASTQ files from SRA or ENA repositories.
  ☆309Updated 5 months ago
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆540Updated 8 months ago
• nf-core / fetchngs
  Pipeline to fetch metadata and raw FastQ files from public databases
  ☆171Updated this week
• sequana / sequana
  Sequana: a set of Snakemake NGS pipelines
  ☆146Updated 3 weeks ago
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆244Updated last month
• simon-anders / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆124Updated 4 years ago
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆246Updated last week
• alimanfoo / pysamstats
  A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM …
  ☆194Updated 3 weeks ago
• nf-core / test-datasets
  Test data to be used for automated testing with the nf-core pipelines
  ☆117Updated this week
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆248Updated 2 weeks ago
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆207Updated last month
• nf-core / methylseq
  Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
  ☆160Updated last week
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆210Updated last week
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆250Updated last year
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆101Updated 4 months ago
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆265Updated last year
• snakemake-workflows / rna-seq-star-deseq2
  RNA-seq workflow using STAR and DESeq2
  ☆339Updated 7 months ago
• CRG-CNAG / CalliNGS-NF
  GATK RNA-Seq Variant Calling in Nextflow
  ☆134Updated 2 years ago
• kcleal / gw
  Genome browser and variant annotation
  ☆296Updated this week
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆208Updated 3 weeks ago
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆235Updated last week
• barricklab / breseq
  breseq is a computational pipeline for finding mutations relative to a reference sequence in short-read DNA resequencing data. It is inte…
  ☆159Updated last week
• igvteam / igv-reports
  Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.
  ☆355Updated 3 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆183Updated this week
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆300Updated last month
• timflutre / trimmomatic
  Read trimming tool for Illumina NGS data.
  ☆131Updated 10 years ago
• The-Sequence-Ontology / Specifications
  GFF and GVF specification documents
  ☆214Updated 9 months ago
• maxplanck-ie / snakepipes
  Customizable workflows based on snakemake and python for the analysis of NGS data
  ☆394Updated this week
• nf-core / viralrecon
  Assembly and intrahost/low-frequency variant calling for viral samples
  ☆133Updated last month