nucleR-package | Nucleosome positioning package for R |
.export.bed | Export ranges in BED format |
controlCorrection | Correct experimental profiles with control sample |
controlCorrection-method | Correct experimental profiles with control sample |
coverage.rpm | Coverage calculation and normalization to reads per million (rpm) |
export.bed | Export ranges in BED format |
export.bed-method | Export ranges in BED format |
export.wig | Export values in WIG format |
filterFFT | Clean noise and smoothing for genomic data using Fourier-analysis |
filterFFT-method | Clean noise and smoothing for genomic data using Fourier-analysis |
fragmentLenDetect | Fragments length detection from single-end sequencing samples |
fragmentLenDetect-method | Fragments length detection from single-end sequencing samples |
mergeCalls | Automatic merging of overlapped nucleosome calls |
nucleosome_htseq | Example reads from high-troughtput sequencing nucleosome positioning experiment |
nucleosome_tiling | Example intensities from Tiling Microarray nucleosome positioning experiment |
nucleR | Nucleosome positioning package for R |
pcKeepCompDetect | Auto detection of a fitted 'pcKeepComp' param for filterFFT function |
peakDetection | Detect peaks (local maximum) from values series |
peakDetection-method | Detect peaks (local maximum) from values series |
peakScoring | Peak scoring function |
peakScoring-method | Peak scoring function |
plotPeaks | Nucleosome calling plot function |
plotPeaks-method | Nucleosome calling plot function |
processReads | Process reads from High-Troughtput Sequencing experiments |
processReads-method | Process reads from High-Troughtput Sequencing experiments |
processTilingArray | Obtain and clean nucleosome positioning data from tiling array |
syntheticNucMap | Generates a synthetic nucleosome map |