Man pages for peterjuv/FunGenPipe
Tools for building function genomics pipelines
| annotate_SEcollapsed | Add collapsed annotations SYMBOLSs, ENTREZIDs (;-separated)... |
| annTFbyFA | Depricated: Get annotations for PGSEA from TRANSFAC using... |
| boxplotRLE | Boxplot RLE (Relative Log Expression) and correlate to RIN |
| dechiperMeltDNAtime | Calculate melting temperatures from ranges using a specified... |
| FunGenPipe | Functional genomics functions and pipes |
| getAnnKeggEntrez | Get collapsed annotations for PGSEA from KEGGREST using... |
| getAnnTransfacEntrez | Get annotations for PGSEA from TRANSFAC using factor names... |
| getColPats | Depricated: Get color patterns with names from another column... |
| getColPats2 | Get named color patterns with names preset or from other... |
| getWriteHeatmap | Write DE genes from contrasts, return DE genes and plot... |
| gscEntrez | Create a GeneSetCollection from probe annotations using... |
| pheatmapTargets2 | Plot heatmap(s) of gene expression using different distance... |
| plotDistr_RGList | Plot distributions of signals in a RGList object using... |
| plotDistrTargets2 | Plot distributions of signals from limma RGList, MAList,... |
| plotMDStargets2 | Plot MDS(es) of gene expression using different distance... |
| plotPCAtargets2 | Plot PCA for gene expression (expLog2) and phenotype data... |
| writeExprsGEO | Return and write gene expression values for GEO |
