Man pages for plbaldoni/mixNBHMM
Differential Peak Calling via Hidden Markov Model With Mixture of Negative Binomial Distributions
| controlEM | Control parameters of the EM algorithm from mixNBHMM |
| createOffset | Create Offsets for Peak Calling |
| cutoff | DEPRECATED, USE fdrControl INSTEAD! |
| ENCODE | ChIP-seq read counts of H3K36me3 of GM12878, H1-hESC, and... |
| fdrControl | Classification of genomic windows given an FDR control... |
| hg19.blacklist.v2 | Blacklisted genomic regions for functional genomics analysis... |
| mixNBHMM | Three-state HMM with mixture model for differential peak... |
| mixNBHMMDataSetFromBam | Create a mixNBHMMDataSet from a set of BAM files |
| mixZINBHMM | Three-state HMM with mixture model for differential peak... |
| plotPeaks | Create a plot of ChIP read counts with called peaks and... |
| simulateHMM | Simulate a hidden Markov model path (HMM) |
| summarizePeaks | Summarize peak calls and optionally create a BED 6+3 file in... |
