Man pages for maxwell-lab/HRDex
| combineSeg | Combine two chromosomal segments into one |
| getAneuploidy | Compute the aneuploidy score for a given chromosome |
| getAneuploidyGenome | get aneuploidy genome |
| getAneuploidyScore | get aneuploidy score |
| getCNt | get the main copynumber state for each chromosome |
| getHRD.Score | get the standard HRD score |
| getLOH | Compute the number of loss of heterozygosity (LOH) events |
| getLST | Compute the number of large state transition (LST) events |
| getNTAI.norm | Compute the number of non-telomeric allelic imbalance (NTAI)... |
| getNTAI.raw | Compute the number of non-telomeric allelic imbalance (NTAI)... |
| hrd.stats | get hrd metrics |
| in.centromere | Return an index of segments that are in the centromere, for a... |
| ploidyNorm.log | Correct HRD metric for ploidy assuming a log-linear... |
| plotAneuploidy | plot aneuploidy |
| preprocessHRD | Define additional properties of the sequencing data necessary... |
