Alternatives and similar repositories for TCGAhrd

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

• McGranahanLab / TcellExTRECT
  ☆47Updated 9 months ago
• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆44Updated 4 years ago
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆64Updated 4 years ago
• ait5 / CNApp
  CNApp represents the first web tool to perform a comprehensive and integrative analysis of copy number alterations (CNAs) in a user-frien…
  ☆20Updated 5 years ago
• amf71 / cloneMap
  An R package to plot maps of clone distributions in somatic evolution
  ☆17Updated last year
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• ruppinlab / tcga-microbiome-prediction
  Predictive models and analysis of cancer prognosis and drug response using primary tumor microbial abundances derived from WGS and RNA-se…
  ☆18Updated 11 months ago
• UMCUGenetics / primary-met-wgs-comparison
  Code repo for all analysis done for the 'Pan-cancer whole genome comparison of primary and metastatic solid tumors' study.
  ☆18Updated 2 years ago
• youqiongye / HAMFA
  Hypoxia associated molecular feature analysis
  ☆35Updated 5 years ago
• fpbarthel / GLASS
  GLASS consortium
  ☆42Updated 5 years ago
• ajitjohnson / imsig
  Immune Cell Gene Signatures for Profiling the Microenvironment of Solid Tumours
  ☆27Updated 4 years ago
• icbi-lab / Immunophenogram
  ☆41Updated 7 years ago
• quevedor2 / aneuploidy_score
  R package to calculate the Aneuploidy Score from Chromosome Arm-level SCNAs/Aneuploidies (CAAs) as outlined and expanded by Shukla et al.…
  ☆16Updated 4 years ago
• foreverdream2 / dysfunction_interaction_test
  ☆30Updated 7 years ago
• getzlab / MutSig2CV
  MutSig2CV from Lawrence et al. 2014
  ☆33Updated 5 years ago
• liulab-dfci / TIDEpy
  TIDE (Tumor Immune Dysfunction and Exclusion), a gene expression biomarker to predict the clinical response to immune checkpoint blockade…
  ☆31Updated 5 years ago
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆54Updated last year
• kevlitchfield1 / CPI1000_paper
  ☆20Updated 4 years ago
• tzhu-bio / cisDynet
  An integrated platform for modeling gene-regulatory dynamics and networks
  ☆32Updated last year
• liulab-dfci / RIMA_pipeline
  ☆87Updated last month
• bowmanr / scDNA_myeloid
  Processing scripts for single cell DNA sequencing on the Tapestri platform
  ☆24Updated 2 years ago
• tushiqi / MAnorm2
  MAnorm2 for Normalizing and Comparing ChIP-seq Samples
  ☆32Updated 2 years ago
• campbio / Manuscripts
  ☆15Updated 3 years ago
• noriakis / CBNplot
  Bayesian network plot for the enrichment analysis results
  ☆65Updated last year
• songw01 / MEGENA
  Multiscale embedded gene co-expression network analysis
  ☆56Updated last year
• ShixiangWang / install_GISTIC
  Install GISTIC2 by one line code; GISTIC2 docker image
  ☆41Updated 2 years ago
• sfu-compbio / citup
  Clonality Inference in Multiple Tumor Samples using Phylogeny
  ☆15Updated 10 years ago
• broadinstitute / gistic2
  Genomic Identification of Significant Targets in Cancer (GISTIC), version 2
  ☆52Updated 3 years ago
• PCAWG-11 / Evolution
  Code accompanying The Evolutionary history of 2,658 cancers
  ☆46Updated 4 years ago
• markowetzlab / CINSignatureQuantification
  Quantifying copy number signatures from absolute copy number profiles
  ☆26Updated 3 months ago