Alternatives and similar repositories for web-TCGA:

Users that are interested in web-TCGA are comparing it to the libraries listed below

• wkl1990 / Illumina450K-methylation
  From IDAT to beta.
  ☆25Updated 6 years ago
• icbi-lab / Immunophenogram
  ☆40Updated 7 years ago
• akoch8 / mexpress
  MEXPRESS is a data visualization tool designed for the visualization of TCGA expression, DNA methylation and clinical data.
  ☆13Updated 4 years ago
• XSLiuLab / tumor-immunogenicity-score
  TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020
  ☆32Updated 3 years ago
• foreverdream2 / dysfunction_interaction_test
  ☆29Updated 6 years ago
• ajitjohnson / imsig
  Immune Cell Gene Signatures for Profiling the Microenvironment of Solid Tumours
  ☆27Updated 4 years ago
• francescojm / ADAM
  Adaptive Daisy Model to discriminate core-fitness/context-specific essential genes in large scale CRISPR-Cas9 screens
  ☆22Updated 6 years ago
• ICBI / neoantigeR
  a R package to identify neoantigens from NGS data
  ☆19Updated 7 years ago
• bhklab / Xeva
  XEnograft Visualization & Analysis
  ☆11Updated last month
• hammerlab / multi-omic-urothelial-anti-pdl1
  Contribution of systemic and somatic factors to clinical response and resistance in urothelial cancer: an exploratory multi-omic analysis
  ☆22Updated 7 years ago
• icbi-lab / immune_deconvolution_benchmark
  Reproducible pipeline for "Comprehensive evaluation of cell-type quantification methods for immuno-oncology", Sturm et al. 2019, https://…
  ☆42Updated 4 years ago
• riazn / biallelic_hr
  Source code and data for "Pan-cancer analysis of bi-allelic alterations in homologous recombination (HR) DNA repair genes" ; See manuscri…
  ☆13Updated 7 years ago
• mdozmorov / gwas2bed
  Extracting disease-specific genomic coordinates from GWAS catalog
  ☆20Updated 5 years ago
• MD-Anderson-Bioinformatics / MBatch
  Superseded by https://github.com/MD-Anderson-Bioinformatics/BatchEffectsPackage
  ☆12Updated 4 years ago
• zhiyhu / NMD-paper
  A pan-cancer genome-wide analysis reveals tumour dependencies by induction of nonsense-mediated decay
  ☆15Updated 4 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• aradenbaugh / radia
  RADIA: RNA and DNA Integrated Analysis for Somatic Mutation Detection
  ☆29Updated 4 years ago
• ShixiangWang / Variants2Neoantigen
  A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)
  ☆29Updated 5 years ago
• dfci / pancanmet_analysis
  Software and analysis of metabolism studies across multiple cancer types
  ☆9Updated 7 years ago
• morrislab / TrackSig
  A framework to infer mutational signatures in cancer over time
  ☆53Updated 5 years ago
• paulgeeleher / pRRophetic
  R package
  ☆22Updated last year
• farkkilab / scarHRD
  Package for calculation of Homologous Recombination Deficiency
  ☆13Updated 5 years ago
• nasqar / ClusterProfShinyGSEA
  A web-based application to perform Gene Set Enrichment Analysis (GSEA) using clusterProfiler and shiny R libraries
  ☆18Updated 5 years ago
• mxxdxxx / FirebrowseR
  An R client for broads firehose pipeline, providing TCGA data sets
  ☆60Updated 5 years ago
• srp33 / TCGA_RNASeq_Clinical
  ☆61Updated 4 years ago
• bratmanlab / cfMeDIP_Protocol
  ☆8Updated 5 years ago
• KChen-lab / SCMarker
  Marker gene selection from scRNA-seq data
  ☆15Updated 4 years ago
• kenichi-shimada / depmap-analysis
  This repostory contains codes for Shimada et al., "A tool for browsing the Cancer Dependency Map reveals functional connections between g…
  ☆13Updated 3 years ago
• ambrosejcarr / seqc
  Single-Cell Sequencing Quality Control and Processing Software
  ☆30Updated 5 years ago
• WeiqiangZhou / BIRD
  Big data Regression for predicting DNase I hypersensitivity
  ☆30Updated 8 months ago