MoonlightR ---------------------------------------------------------------- FIRST VERSION - FEATURES * dataFilt Gene Expression (Rnaseqv2) data from TCGA LUAD * dataGRN GRN gene regulatory network output * dataURA Output example from function Upstram Regulator Analysis * DEGsmatrix DEG Differentially expressed genes * DiseaseList Information on 101 biological processes * DPA DPA * EAGenes Information about genes * FEA FEA * GDCprojects Information on GDC projects * geneInfo Information about genes for normalization * GEO_TCGAtab Information on GEO data (and overlap with TCGA) * getDataGEO getDataGEO * getDataTCGA getDataTCGA * GRN Generate network * GSEA GSEA * knownDriverGenes Information on known cancer driver gene from COSMIC * listMoonlight Output list from Moonlight * LPA LPA * moonlight moonlight pipeline * MoonlightR MoonlightR * PEA PEA * plotCircos plotCircos * plotFEA plotFEA * plotNetworkHive plotNetworkHive: Hive network plot * plotURA plotURA: Upstream regulatory analysis heatmap plot * PRA Pattern Recognition Analysis (PRA) * tabGrowBlock Information growing/blocking characteristics for 101 selected biological processes * URA URA Upstream Regulator Analysis