Alternatives and similar repositories for pancancer

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

• mdozmorov / Immuno_notes
  Immunology-related bioinformatics data and tools
  ☆73Updated last year
• mdozmorov / TCGAsurvival
  Scripts to analyze TCGA data
  ☆120Updated last year
• mdozmorov / Cancer_notes
  A continually expanding collection of cancer genomics notes and data
  ☆104Updated last month
• KevinMenden / scaden
  Deep Learning based cell composition analysis with Scaden.
  ☆79Updated 7 months ago
• compgenome365 / TCGA-Assembler-2
  TCGA-Assembler 2
  ☆76Updated 7 years ago
• KrishnaswamyLab / SingleCellWorkshop
  ☆90Updated 4 years ago
• mskcc / RNAseqDB
  ☆141Updated 7 years ago
• kundajelab / alzheimers_parkinsons
  Collaboration with Montine, Chang, and Montgomery labs on Alzheimers / Parkinson's ATAC-seq analysis
  ☆46Updated 4 years ago
• BIMSBbioinfo / maui
  Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkit
  ☆49Updated last year
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆88Updated 5 years ago
• tabdelaal / scRNAseq_Benchmark
  Bench-marking classification tools for scRNA-seq data
  ☆186Updated 2 years ago
• Swarbricklab-code / BrCa_cell_atlas
  Data processing and analysis related code associated with the study "A single-cell and spatially resolved atlas of human breast cancers".
  ☆113Updated 8 months ago
• srp33 / TCGA_RNASeq_Clinical
  ☆61Updated 4 years ago
• LocasaleLab / Single-Cell-Metabolic-Landscape
  Pipeline for exploring metebolic heterogeneity at single-cell resolution
  ☆73Updated 5 years ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆197Updated last year
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆148Updated last year
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• broadinstitute / Celligner_ms
  Code related to the Celligner manuscript
  ☆46Updated 4 years ago
• PoisonAlien / TCGAmutations
  R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE
  ☆93Updated 8 months ago
• favilaco / deconv_benchmark
  ☆58Updated 4 years ago
• TranslationalBioinformaticsUnit / singlecelldb
  An actionable database of publicly available single-cell RNA-seq data
  ☆41Updated 6 years ago
• quadbio / scMultiome_analysis_vignette
  Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis
  ☆57Updated last year
• ysuzukilab / Cibersortx
  Repository for Cibersortx
  ☆59Updated 4 years ago
• ICGC-TCGA-PanCancer / TumorType-WGS
  Classifying tumor types based on Whole Genome Sequencing (WGS) data
  ☆48Updated last year
• zhangyuqing / ComBat-seq
  Batch effect adjustment based on negative binomial regression for RNA sequencing count data
  ☆179Updated 4 years ago
• erilu / bulk-rnaseq-analysis
  A complete guide for analyzing bulk RNA-seq data. Go from raw FASTQ files to mapping reads using STAR and differential gene expression an…
  ☆87Updated 4 years ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆201Updated last year
• saezlab / transcriptutorial
  This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL
  ☆55Updated 2 years ago
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆140Updated last year
• YeoLab / single-cell-bioinformatics
  Course material in notebook format for learning about single cell bioinformatics methods
  ☆102Updated 8 years ago