Alternatives and similar repositories for galaxy

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

• ngs-docs / angus
  Materials for Analyzing Next-Generation Sequencing (ANGUS) course.
  ☆108Updated 2 years ago
• maasha / biopieces
  Biopieces is a bioinformatic framework of tools easily used and easily created.
  ☆144Updated 7 years ago
• macarthur-lab / clinvar
  This repo provides tools to convert ClinVar data into a tab-delimited flat file, and also provides that resulting tab-delimited flat file…
  ☆128Updated 5 years ago
• genome / gms
  The Genome Modeling System installer
  ☆78Updated 10 years ago
• brentp / bio-playground
  miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.
  ☆182Updated 7 years ago
• konradjk / exac_browser
  Browser for ExAC consortium data
  ☆106Updated 3 years ago
• ChristofferFlensburg / superFreq
  Analysis pipeline for cancer sequencing data
  ☆112Updated 8 months ago
• nunofonseca / irap
  integrated RNA-seq Analysis Pipeline
  ☆84Updated 6 years ago
• KHP-Informatics / ngseasy
  Dockerised Next Generation Sequencing Pipeline (QC, Align, Calling, Annotation)
  ☆86Updated 8 years ago
• alyssafrazee / ballgown
  Bioconductor package "ballgown", devel version. Isoform-level differential expression analysis in R.
  ☆148Updated 4 years ago
• Czh3 / NGSTools
  Next-Generation Sequencing(NGS) toolkits.
  ☆48Updated 9 years ago
• ewels / clusterflow
  A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.
  ☆98Updated 2 years ago
• bioinformatics-core-shared-training / cruk-bioinf-sschool
  http://bioinformatics-core-shared-training.github.io/cruk-bioinf-sschool
  ☆34Updated 10 years ago
• h3abionet / h3agatk
  ☆21Updated 5 years ago
• biothings / myvariant.info
  MyVariant.info: A BioThings API for human variant annotations
  ☆96Updated 4 months ago
• shenwei356 / bio_scripts
  Practical, reusable scripts for bioinformatics
  ☆102Updated 6 years ago
• mdshw5 / fastqp
  Simple FASTQ quality assessment using Python
  ☆109Updated 4 years ago
• ngsutils / ngsutils
  Tools for next-generation sequencing analysis
  ☆89Updated 6 years ago
• kingsfordgroup / sailfish
  Rapid Mapping-based Isoform Quantification from RNA-Seq Reads
  ☆127Updated 3 years ago
• broadinstitute / mutect
  MuTect -- Accurate and sensitive cancer mutation detection
  ☆102Updated 2 years ago
• SciLifeLab / Sarek
  Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
  ☆133Updated 5 years ago
• GenomiqueENS / dockerfiles
  ☆83Updated 3 years ago
• stevekm / nextflow-demos
  Example Nextflow pipelines and programming techniques
  ☆106Updated 4 months ago
• vsbuffalo / scythe
  A 3'-end adapter contaminant trimmer
  ☆95Updated 7 years ago
• pjotrp / bioinformatics
  Tools for bioinformatics moved to http://git.genenetwork.org/pjotrp/bioinformatics
  ☆261Updated 3 years ago
• MaayanLab / Zika-RNAseq-Pipeline
  An open RNA-Seq data analysis pipeline tutorial with an example of reprocessing data from a recent Zika virus study
  ☆103Updated 3 years ago
• davetang / learning_bam_file
  Learning the Sequence Alignment/Map format
  ☆112Updated 5 months ago
• OmnesRes / onco_lnc
  ☆35Updated 9 years ago
• DaehwanKimLab / tophat
  Spliced read mapper for RNA-Seq
  ☆92Updated 2 years ago
• NCBI-Hackathons / Community_Software_Tools_for_NGS
  ☆63Updated 9 years ago