Man pages for wavClusteR
Sensitive and highly resolved identification of RNA-protein interaction sites in PAR-CLIP data
| annotateClusters | Annotate clusters with respect to transcript features |
| estimateFDR | Estimate False Discovery Rate within the relative... |
| exportClusters | Export clusters as BED track |
| exportCoverage | Export coverage as BigWig track |
| exportHighConfSub | Export high-confidence substitutions as BED track |
| exportSequences | Export cluster sequences for motif search analysis |
| filterClusters | Merge clusters and compute all relevant cluster statistics |
| FitMixtureModel | Fit a non-parametric mixture model from all identified... |
| getAllSub | Identify all substitutions observed across genomic positions... |
| getClusters | Identify clusters containing high-confidence substitutions... |
| getExpInterval | Identify the interval of relative substitution frequencies... |
| getHighConfSub | Classify substitutions based on identified RSF interval and... |
| getMetaCoverage | Compute and plot distribution of average coverage or relative... |
| getMetaGene | Compute and plot metagene profile using identified clusters |
| getMetaTSS | Compute and plot read densities in genomic regions around... |
| model | Components of the non-parametric mixture moodel fitted on... |
| plotSizeDistribution | Plot the distribution of cluster sizes |
| plotStatistics | Pairs plot visualization of clusters statistics |
| plotSubstitutions | Barplot visualization of the number of genomic positions... |
| readSortedBam | Load a sorted BAM file |
| wavClusteR-package | A comprehensive pipeline for the analysis of PAR-CLIP data.... |
