Package with basic analysis functions for genomic data.
createTargets: Function to create phenodata of the samples in the gene expression matrix.
DeleteCtrlsGral: Function to delete control probe IDs from the expression matrix.
gct.data4Tyers: Function to create gct format files for GSEA analysis.
generate_cls: Function to create .cls format files for GSEA analysis.
generate_gct: Function to create .gct format files for GSEA analysis.
generate_rnk: Function to create .rnk files for GSEA analysis.
MaxMin.Sym.Row: Function to resolve GeneID duplicates chosing the minimum or maximum values.
Unique.Sym.Estimates: Function to resolve GeneID duplicates computing the mean and the median.
data4TyersMake: Function to make a data frame with a structure of data4Tyers from arrays (RMA data).
RNAseq.data4Tyers: Function to make a data frame with a structure of data4Tyers from RNAseq data.
Complete.Human.GO.nd.KEGG: Function to complete annotations from RNAseq (featurecounts function) with GO and KEGG databases, for each gene and human specie.
Complete.Mouse.GO.nd.KEGG: Function to complete annotations from RNAseq (featurecounts function) with GO and KEGG databases, for each gene and mouse specie.
GSEA_report_HS: Function to make the report of GSEA based on human symbols
GSEA_report_MS: Function to make the report of GSEA based on mouse symbols
GSEA_report_ENSEMBL: Function to make the report of GSEA based on ENSEMBL IDs
GSEA_genes_Report: Function to make the report of GSEA sumarized by gene