Alternatives and similar repositories for gdctools

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

• Bioconductor / GenomicDataCommons
  Provide R access to the NCI Genomic Data Commons portal.
  ☆89Updated 4 months ago
• BioinformaticsFMRP / TCGAbiolinksGUI
  TCGAbiolinksGUI code development for R/Bioconductor submission http://tcgabiolinks.fmrp.usp.br:3838/
  ☆36Updated 4 years ago
• tiagochst / ELMER
  Enhancer Linking by Methylation/Expression Relationship (ELMER) is package to identify tumor-specific changes in DNA methylation within d…
  ☆25Updated 2 years ago
• nunofonseca / irap
  integrated RNA-seq Analysis Pipeline
  ☆83Updated 6 years ago
• YuLab-SMU / ReactomePA
  Reactome Pathway Analysis
  ☆43Updated 5 months ago
• rhondabacher / SCnorm
  Normalization for single cell RNA-seq data
  ☆48Updated 3 months ago
• OmnesRes / onco_lnc
  ☆35Updated 9 years ago
• Ensembl / postgap
  Linking GWAS studies to genes through cis-regulatory datasets
  ☆39Updated 2 years ago
• bcgsc / orca
  Genomics Research Container Architecture
  ☆48Updated 6 years ago
• BD2KGenomics / toil-rnaseq
  UC Santa Cruz Computational Genomics Lab's Toil-based RNA-seq pipeline
  ☆41Updated 5 years ago
• Bioconductor / GoogleGenomics
  [DEPRECATED] An R package for Google Genomics API queries.
  ☆45Updated 2 years ago
• reiterlab / treeomics
  Decrypting somatic mutation patterns to reveal the evolution of cancer
  ☆56Updated 4 years ago
• YosefLab / scone
  ☆55Updated 7 months ago
• yuchaojiang / Canopy
  Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolutionary History by Next-Generation Sequencing.
  ☆70Updated 4 years ago
• mxxdxxx / FirebrowseR
  An R client for broads firehose pipeline, providing TCGA data sets
  ☆61Updated 6 years ago
• MaayanLab / biojupies
  Automated generation of tailored bioinformatics Jupyter Notebooks via a user interface.
  ☆118Updated 3 months ago
• hakyim / TO-DELETE-PrediXcan
  Code for the in-dev PrediXcan Project
  ☆27Updated 2 years ago
• phenopolis / phenopolis
  An Open Platform for Harmonisation & Analysis of Sequencing & Phenotype Data
  ☆33Updated 3 years ago
• cpreid2 / gdc-rnaseq-tool
  Tool to download/merge RNASeq data from the GDC Portal in matrices identified by TCGA barcode
  ☆35Updated 5 years ago
• thelovelab / tximport
  Transcript quantification import for modular pipelines
  ☆140Updated 3 weeks ago
• broadinstitute / single_cell_portal_core
  Rails/Docker application for the Broad Institute's single cell RNA-seq data portal
  ☆68Updated this week
• HumanCellAtlas / skylab
  Soon to be deprecated in favor of broadinstitute/warp github repo. Previously: Secondary analysis pipelines
  ☆48Updated 6 months ago
• leipzig / snakemake-example
  RNA-Seq Snakemake example with Jekyll homepage creation
  ☆20Updated 11 years ago
• oganm / geneSynonym
  Quick access to gene synonyms
  ☆29Updated last week
• caravagnalab / revolver
  Tumour stratification by maximum-likelihood repeated evolution from multi-region sequencing data
  ☆65Updated 2 years ago
• biothings / myvariant.py
  Python client for MyVariant.info web services.
  ☆23Updated 8 months ago
• AlexsLemonade / OpenPBTA-analysis
  The analysis repository for the Open Pediatric Brain Tumor Atlas Project
  ☆105Updated 2 years ago
• googlegenomics / pipelines-api-examples
  Examples for the Google Genomics Pipelines API.
  ☆50Updated 7 years ago
• NCBI-Hackathons / ConsensusML
  Machine Learning to Detect Cancer Biomarkers from RNAseq Data
  ☆34Updated 6 years ago
• daler / metaseq
  Framework for integrated analysis and plotting of ChIP/RIP/RNA/*-seq data
  ☆87Updated 5 years ago