├── .Rbuildignore ├── .gitignore ├── ConsensusTME.Rproj ├── Consensus_Signatures ├── ACC_Consensus_Signatures.txt ├── BLCA_Consensus_Signatures.txt ├── BRCA_Consensus_Signatures.txt ├── CESC_Consensus_Signatures.txt ├── CHOL_Consensus_Signatures.txt ├── COAD_Consensus_Signatures.txt ├── DLBC_Consensus_Signatures.txt ├── ESCA_Consensus_Signatures.txt ├── GBM_Consensus_Signatures.txt ├── HNSC_Consensus_Signatures.txt ├── KICH_Consensus_Signatures.txt ├── KIRC_Consensus_Signatures.txt ├── KIRP_Consensus_Signatures.txt ├── LGG_Consensus_Signatures.txt ├── LIHC_Consensus_Signatures.txt ├── LUAD_Consensus_Signatures.txt ├── LUSC_Consensus_Signatures.txt ├── MESO_Consensus_Signatures.txt ├── OV_Consensus_Signatures.txt ├── PAAD_Consensus_Signatures.txt ├── PCPG_Consensus_Signatures.txt ├── PRAD_Consensus_Signatures.txt ├── READ_Consensus_Signatures.txt ├── SARC_Consensus_Signatures.txt ├── SKCM_Consensus_Signatures.txt ├── STAD_Consensus_Signatures.txt ├── TGCT_Consensus_Signatures.txt ├── THCA_Consensus_Signatures.txt ├── THYM_Consensus_Signatures.txt ├── UCEC_Consensus_Signatures.txt ├── UCS_Consensus_Signatures.txt ├── UVM_Consensus_Signatures.txt └── Unfiltered_Consensus_Signatures.txt ├── DESCRIPTION ├── LICENSE.md ├── NAMESPACE ├── Overview.png ├── R └── ConsensusTME.R ├── README.md ├── data-raw ├── Bindea_genes.txt ├── CIBERSORT_LM22.txt ├── Danaher_genes.txt ├── Davoli_genes.txt ├── ESTIMATE_stromal_genes.txt ├── MCP_genes.txt ├── Method_data.RData ├── Purity_immune_genes.txt ├── Raw_Gene_List.RData ├── methodSignatures.R ├── useful_functions.R └── xCell_genes.txt ├── data ├── cancerAll.rda ├── consensusGeneSets.rda └── methodSignatures.rda └── man ├── ConsensusTME.Rd ├── buildConsensusGenes.Rd ├── cancerAll.Rd ├── consensusGeneSets.Rd ├── consensusTMEAnalysis.Rd ├── geneSetEnrichment.Rd ├── matchGeneSigs.Rd └── methodSignatures.Rd /.Rbuildignore: -------------------------------------------------------------------------------- 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