Man pages for coRdon
Codon Usage Analysis and Prediction of Gene Expressivity
| bplot | Karlin B plot |
| codonTable-class | An S4 class 'codonTable' |
| codonUsage | Calculate CU measures. |
| codonUsage-expressivity | Calculate CU expressivity measures. |
| coRdon | coRdon: codon usage analysis in R |
| crossTab-class | An S4 class 'crossTab' |
| enrichBarplot | Barplot of enriched and depleted annotations. |
| enrichMAplot | MA plot of enriched annotations. |
| enrichMatrix | Extract chosen enrichment values to a matrix. |
| enrichment | Enrichment analysis for codon usage (CU) data. |
| genCode-class | An S4 class 'genCode' |
| HD59 | Codon usage in healthy human gut microbiome. |
| HD59_KO | Codon usage based KO enrichment analysis results from the... |
| HD59_PATHWAYS | Codon usage based KEGG Pathway enrichment analysis results... |
| intraBplot | Intra-samples Karlin B plot |
| LD94 | Codon usage in human gut microbiome in liver cirrhosis. |
| LD94_KO | Codon usage based KO enrichment analysis results from an gut... |
| LD94_PATHWAYS | Codon usage based KEGG Pathway enrichment analysis results... |
| length-codonTable | Length of 'codonTable' object. |
| length-crossTab | Length of 'crossTab' object. |
| readSet | Read set of sequences. |
| reduceCrossTab | Reduce 'crossTab'. |
| RPKOs | KEGG Orthology (KO) annotations for ribosomal genes. |
| show-codonTable | Display the object of 'codonTable' class. |
| show-crossTab | Display the object of 'crossTab' class. |
| subset | Subset 'codonTable' object. |
