Man pages for CoarfaBCM/derecksLabTools
A tool belt for my work at Coarfa lab Baylor College of Medicine
| cite_RNAseqGSEA | RNAseq GSEA methods citation |
| combatRNAseq-class | 'S4' class; does sva::ComBat_seq batch correction |
| dtcolnames | Get the data column names from data.table; exclude ID col |
| excel2List | Read an excel workbook to a named list of data.tables or... |
| list2Excel | Save a named list of 'data.frames' | 'data.tables' to and... |
| plot-Volcano-ANY-method | 'S4' method for 'Volcano' 'S4' class |
| read.gmt | Read a .gmt pathway type file as a list. |
| RNAseq_GSEAheatmaps | Make heatmaps from combined GSEA reports after EdgeR |
| sig2UpDownGmt | Signature(s) files to GMT list; split up and down (inclusive)... |
| summariseSignatures | Summarise how many genes up and down from a combined... |
| table2tabs | Parse Excel tables from one sheet to named tabs |
| tabs2table | Combine Excel sheets to single table |
| to.data.frame | 'S3' generic; convert to data.frame *move* column to... |
| to.matrix | 'S3' generic; convert to matrix *move* column to 'rownames' |
| valueCoordinates | Coordinates of X values in a data.table|data.frame |
| Volcano-class | 'S4' class; Volcano data.table manipulated and prepared for... |
| write.gmt | Write GMT list to a formatted file. |
