Alternatives and similar repositories for genomics-in-the-cloud

Users that are interested in genomics-in-the-cloud are comparing it to the libraries listed below

• nextflow-io / rnaseq-nf
  A proof of concept of RNAseq pipeline
  ☆78Updated 2 months ago
• grst / snakemake_nextflow_wdl
  simple comparison of snakemake, nextflow and cromwell/wdl
  ☆50Updated 5 years ago
• stevekm / nextflow-demos
  Example Nextflow pipelines and programming techniques
  ☆106Updated 3 months ago
• sib-swiss / statistics-and-machine-learning-training
  ☆28Updated 4 months ago
• ewels / AWS-iGenomes
  Documentation and description of AWS iGenomes S3 resource.
  ☆116Updated 8 months ago
• seqeralabs / nextflow-tutorial
  Nextflow training material for introductory tutorial
  ☆106Updated 3 years ago
• CRG-CNAG / CalliNGS-NF
  GATK RNA-Seq Variant Calling in Nextflow
  ☆135Updated 2 years ago
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆106Updated 2 months ago
• schatzlab / appliedgenomics2018
  Materials for Spring 2018 Applied Genomics Course
  ☆79Updated 6 years ago
• nf-core / smrnaseq
  A small-RNA sequencing analysis pipeline
  ☆89Updated 2 months ago
• stjudecloud / workflows
  Bioinformatics workflows developed for and used on the St. Jude Cloud project.
  ☆36Updated this week
• gatk-workflows / seq-format-conversion
  Workflows for converting between sequence data formats
  ☆38Updated 3 years ago
• cbg-ethz / NGS-pipe
  NGS-pipe: next-generation sequencing pipelines for precision oncology
  ☆114Updated 6 years ago
• openwdl / learn-wdl
  Educational materials for learning WDL
  ☆128Updated last year
• biostars / biostar-handbook
  Issue tracker for the Biostar Handbook
  ☆63Updated 3 years ago
• genome / analysis-workflows
  Open workflow definitions for genomic analysis from MGI at WUSM.
  ☆104Updated 2 months ago
• sequana / sequana
  Sequana: a set of Snakemake NGS pipelines
  ☆146Updated last month
• gatk-workflows / five-dollar-genome-analysis-pipeline
  Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline
  ☆57Updated 5 years ago
• h3abionet / h3agwas
  GWAS Pipeline for H3Africa
  ☆111Updated 3 months ago
• nf-core / test-datasets
  Test data to be used for automated testing with the nf-core pipelines
  ☆138Updated last week
• DiltheyLab / HLA-LA
  Fast HLA type inference from whole-genome data
  ☆136Updated 4 months ago
• gatk-workflows / gatk4-somatic-snvs-indels
  This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…
  ☆77Updated 5 years ago
• nf-core / configs
  Config files used to define parameters specific to compute environments at different Institutions
  ☆103Updated this week
• gatk-workflows / gatk4-jupyter-notebook-tutorials
  This repository contains Jupyter Notebooks containing GATK Best Practices Workflows
  ☆26Updated 5 years ago
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆204Updated 4 years ago
• sschmeier / genomics
  Sphinx documentation source for a computational genomics tutorial.
  ☆34Updated 4 years ago
• gatk-workflows / gatk4-data-processing
  Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools
  ☆155Updated 3 years ago
• broadinstitute / long-read-pipelines
  Long read production pipelines
  ☆147Updated 3 weeks ago
• aryeelab / guideseq
  Analysis pipeline for the GUIDE-seq assay.
  ☆78Updated 2 years ago
• sheynkman-lab / Long-Read-Proteogenomics
  A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.
  ☆48Updated 2 years ago