Alternatives and similar repositories for TCGA_PanCancer_Immune_Genetics

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

• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆44Updated 4 years ago
• amf71 / cloneMap
  An R package to plot maps of clone distributions in somatic evolution
  ☆17Updated last year
• ElkonLab / scAPA
  This is a package and a shell script for alternative polyadenylation (APA) analysis of 3' tag single-cell RNA-seq data.
  ☆23Updated 3 years ago
• McGranahanLab / TcellExTRECT
  ☆47Updated 9 months ago
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆64Updated 4 years 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
• shengxin321 / HumanKidney_eQTL_and_snATAC-seq
  codes used in the human kidney eQTL(cf) and eQTL(ci) and snATAC-seq data
  ☆19Updated 4 years ago
• lkmklsmn / MitoTrace
  ☆18Updated last year
• wenweixiong / MARVEL
  ☆51Updated last year
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆55Updated last year
• karthikj89 / scgenetics
  identifying disease critical cell types and programs from single cell RNAseq
  ☆57Updated 3 years ago
• single-cell-genetics / cellSNP
  Pileup biallelic SNPs from single-cell and bulk RNA-seq data
  ☆80Updated 3 years ago
• gxiaolab / scAllele
  ☆39Updated 2 months ago
• sridnona / cb_sniffer
  mutation(barcode) caller for 10x single cell data
  ☆45Updated 5 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
• sunnyzwu / stromal_subclasses
  code for data processing and visualisation associated with the stromal subclasses manuscript
  ☆12Updated 5 years ago
• nghiavtr / SCmut
  ☆34Updated 6 years ago
• TianLab-Bioinfo / scMAGIC
  A robust and accurate cell type classifier for single cell RNA-seq data
  ☆17Updated 2 years ago
• chensujun / scRNA
  ☆32Updated 4 years ago
• youqiongye / HAMFA
  Hypoxia associated molecular feature analysis
  ☆35Updated 5 years ago
• arc85 / celltalker
  Inference of cell-cell communication from single-cell RNAseq data
  ☆48Updated 6 months ago
• getzlab / ABSOLUTE
  ABSOLUTE source code that works with allelic copy ratio on both hg19 and hg38
  ☆11Updated 4 months ago
• Japrin / scPip
  A pipeline for scRNA-seq data analysis
  ☆15Updated 7 months ago
• harbourlab / uphyloplot2
  Draw phylogenetic trees of tumor evolution
  ☆86Updated 2 years ago
• cancersysbio / SCIMET
  Spatial Computational Inference of MEtastatic Timing (SCIMET)
  ☆14Updated 6 years ago
• GerkeLab / TCGAhrd
  Homologous recombination deficiency in TCGA PanCancer Atlas
  ☆28Updated 4 years ago
• omicsCore / scTyper
  scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data
  ☆31Updated 2 years ago
• FredHutch / Galeano-Nino-Bullman-Intratumoral-Microbiota_2022
  Analysis code used in Galeano Nino et al., Impact of Intratumoral Microbiota on Spatial and Cellular Heterogeneity in human cancer. 2022
  ☆38Updated last year
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• 3UTR / 3aQTL-pipe
  Mapping 3′UTR alternative polyadenylation quantitative trait loci through population-scale transcriptomic and genomic data
  ☆12Updated 2 years ago