Alternatives and similar repositories for modules

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

• zavolanlab / zarp
  The Zavolab Automated RNA-seq Pipeline
  ☆35Updated last month
• nf-core / scnanoseq
  Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
  ☆37Updated this week
• nf-core / variantbenchmarking
  Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
  ☆29Updated 2 weeks ago
• crazyhottommy / pyflow-RNAseq
  RNAseq pipeline based on snakemake
  ☆26Updated 2 years ago
• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆36Updated last week
• nf-core / rnasplice
  rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis
  ☆54Updated last month
• Oshlack / MINTIE
  Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.
  ☆35Updated 11 months ago
• pachterlab / sircel
  Identify cell barcodes from single-cell genomics sequencing experiments
  ☆43Updated 3 years ago
• pinellolab / AmpUMI
  Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)
  ☆41Updated last year
• nf-core / rnavar
  gatk4 RNA variant calling pipeline
  ☆47Updated last month
• pachterlab / splitcode
  Flexible and efficient parsing, interpreting and editing of sequencing reads
  ☆43Updated this week
• nf-core / airrflow
  B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
  ☆60Updated last month
• Danko-Lab / tutorials
  Tutorials covering various topics in genomic data analysis.
  ☆17Updated 6 years ago
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆62Updated last month
• CGGOxford / Opossum
  Opossum is a tool to pre-process RNA-seq reads prior to variant calling.
  ☆28Updated 6 years ago
• pinellolab / CRISPRitz
  Tool package to perform in-silico CRISPR analysis and assessment
  ☆27Updated last year
• cortes-ciriano-lab / ReConPlot
  ☆22Updated 5 months ago
• griffithlab / genviz.org
  Genomic data interpretation and visualization Workshop
  ☆20Updated last week
• nf-core / oncoanalyser
  A comprehensive cancer DNA/RNA analysis and reporting pipeline
  ☆73Updated this week
• bedapub / splicekit
  splicekit: an integrative toolkit for splicing analysis from short-read RNA-seq
  ☆17Updated 2 months ago
• murphycj / AGFusion
  Python package to annotate and visualize gene fusions.
  ☆63Updated 8 months ago
• mehdiborji / nanoranger
  simplified cellranger for long-read data
  ☆19Updated last month
• Oshlack / Clinker
  Gene Fusion Visualiser
  ☆51Updated 2 years ago
• pachterlab / fastQpick
  ☆26Updated 3 months ago
• broadinstitute / CODECsuite
  analysis pipeline for CODEC data
  ☆11Updated 2 weeks ago
• seqeralabs / wave-showcase
  Examples showing how to configure Nextflow to run with Wave containers provisioning service
  ☆21Updated 7 months ago
• jlab-code / MethylStar
  A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.
  ☆35Updated 3 years ago
• fulcrumgenomics / python-snakemake-template
  A template repository for Snakemake pipepline(s) and a python command-line toolkit.
  ☆28Updated last month
• Dowell-Lab / TFEA
  Transcription Factor Enrichment Analysis
  ☆34Updated last month
• Oshlack / Slinker
  Slinker offers a succinct and complementary method to visualise RNA-Seq data through superTranscripts.
  ☆19Updated 2 years ago