Dynamic Programming Algorithm for Peak Detection in ChIP-Seq
Data
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Documentation for package ‘PeakSegDP’ version 2024.1.24
Help Pages
| calc.grad.list | calc grad list |
| calc.loss.from.lp.list | calc loss from lp list |
| calc.loss.list | calc loss list |
| cDPA | cDPA |
| chr11ChIPseq | ChIP-seq aligned read coverage for 4 samples on a subset of chr11 |
| chr11first | Counts of first base of aligned reads |
| derivs | derivs |
| GeomTallRect | GeomTallRect |
| getPath | getPath |
| H3K36me3.AM.immune.19 | Several ChIP-seq profiles, some of which have few data points |
| H3K36me3.TDH.other.chunk3.cluster4 | 8 profiles of H3K36me3 data |
| H3K4me3.TDH.immune.chunk12.cluster4 | Histone ChIP-seq data, 26 samples, chr1 subset |
| PeakSegDP | PeakSegDP |
| phi.list | phi list |
| PoissonLoss | PoissonLoss |
| regression.funs | regression funs |