Alternatives and similar repositories for GSCALite

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

• Gibbsdavidl / Immune-Subtype-Clustering
  This repo contains the code necessary to reproduce the clusters found in "The Immune Landscape of Cancer".
  ☆18Updated 6 years ago
• icbi-lab / Immunophenogram
  ☆40Updated 7 years ago
• PeeperLab / Rtoolbox
  Toolbox with R scripts
  ☆38Updated 6 years ago
• foreverdream2 / dysfunction_interaction_test
  ☆30Updated 7 years ago
• waldronlab / HGNChelper
  Identify and correct invalid gene symbols
  ☆58Updated 8 months ago
• XSLiuLab / tumor-immunogenicity-score
  TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020
  ☆32Updated 3 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆28Updated 2 years ago
• cansysbio / ConsensusTME
  ConsensusTME Gene Sets and R Script
  ☆39Updated last year
• crazyhottommy / scRNA-seq-workshop-Fall-2019
  Harvard FAS informatics scRNAseq workshop website
  ☆38Updated 6 years ago
• jokergoo / cola
  A General Framework for Consensus Partitioning
  ☆63Updated 6 months ago
• sjczheng / EpiDISH
  This package contains a reference-based function to infer the proportions of a priori known cell subtypes present in a sample representin…
  ☆53Updated 8 months ago
• riazn / bms038_analysis
  Code and additional processed data for manuscript "Tumor and Microenvironment Evolution during Immunotherapy with Nivolumab"; see for man…
  ☆51Updated 7 years ago
• montilab / hypeR
  An R Package for Geneset Enrichment Workflows
  ☆76Updated 2 months ago
• ajitjohnson / imsig
  Immune Cell Gene Signatures for Profiling the Microenvironment of Solid Tumours
  ☆27Updated 4 years ago
• plger / pipeComp
  A R framework for pipeline benchmarking, with application to single-cell RNAseq
  ☆41Updated 3 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://…
  ☆43Updated 5 years ago
• kevinblighe / scDataviz
  scDataviz: single cell dataviz and downstream analyses
  ☆63Updated 3 years ago
• lagelab / quack
  Machine learning algorithm to predict biological pathway relationships based on functional genomics networks
  ☆20Updated 6 years ago
• gersteinlab / exceRpt
  Software for preprocessing, filtering, alignment, and reporting of smallRNA-seq datasets
  ☆23Updated 2 years ago
• greenelab / gbm_immune_validation
  Validating glioblastoma immune cell immunohistochemsitry using computational deconvolution of TCGA tumors
  ☆14Updated 6 years ago
• fpbarthel / GLASS
  GLASS consortium
  ☆39Updated 5 years ago
• shenorrLabTRDF / bseqsc
  Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline
  ☆45Updated 2 years ago
• oganm / homologene
  An r package that works as a wrapper to homologene
  ☆46Updated last year
• crazyhottommy / scCustomize
  Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
  ☆16Updated 3 years ago
• ctlab / LinSeed
  Linseed: LINear Subspace identification for gene Expresion Deconvolution
  ☆30Updated 3 months ago
• noriakis / CBNplot
  Bayesian network plot for the enrichment analysis results
  ☆64Updated 10 months ago
• PoisonAlien / TCGAmutations
  R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE
  ☆95Updated 10 months ago
• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆43Updated 4 years ago
• GerkeLab / TCGAhrd
  Homologous recombination deficiency in TCGA PanCancer Atlas
  ☆28Updated 4 years ago
• andygxzeng / AMLHierarchies
  Analysis notebooks and data for AML hierarchies paper
  ☆16Updated 2 years ago