| 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 |
| readBAM | Import reads from a list of BAM files. |
| syntheticNucMap | Generates a synthetic nucleosome map |