Man pages for cancerTiming
Estimation of Temporal Ordering of Cancer Abnormalities
| alleleFreq | Get allele frequencies for tumor data |
| bootstrapEventTiming | Bootstrap the results of eventTiming |
| eventTiming | Estimate the time of events in tumor data |
| eventTimingOverList | eventTiming for multiple samples and regions |
| hg19chromosomes | Definitions of the p,q, and centromeres of chromosomes |
| labelSeg | Helper functions for plotting |
| makeEventHistory | Create the event history matrix |
| mleAF | Estimate the most likely allele frequency |
| multidensity | plot multiple density functions on top of each other |
| mut2Seg | Align mutations to segments |
| mutData | Example Mutation Data |
| plotAlleleByPosition | Plot allele frequencies by position |
| plotAlleleDensity | Plot density/histogram of allele frequencies |
| plotCopies | plot segmentation values against each other |
| plotPi0 | Confidence intervals for pi[0] |
| plotSegmentation | plot segmentation(s) against positions |
| plotSeqCount | Basic function for plotting the ratio of tumor to normal... |
| readSimulation | Simulate reads based on an event matrix |
