model

The non-parametric mixture model was fit on the entire Ago2 public available
PAR-CLIP dataset (Kishore et al.) using the <code>fitMixtureModel</code> function.

datasets

The package provides an integrated pipeline for the analysis
    of PAR-CLIP data. PAR-CLIP-induced transitions are first discriminated from
    sequencing errors, SNPs and additional non-experimental sources by a non-
    parametric mixture model. The protein binding sites (clusters) are then resolved
    at high resolution and cluster statistics are estimated using a rigorous
    Bayesian framework. Post-processing of the results, data export for UCSC genome
    browser visualization and motif search analysis are provided. In addition, the
    package allows to integrate RNA-Seq data to estimate the False Discovery Rate
    of cluster detection. Key functions support parallel multicore computing. Note:
    while wavClusteR was designed for PAR-CLIP data analysis, it can be applied to
    the analysis of other NGS data obtained from experimental procedures that induce
    nucleotide substitutions (e.g. BisSeq).

Federico Comoglio

wavClusteR

Sensitive and highly resolved identification of RNA-protein interaction
    sites in PAR-CLIP data

model function

List of 5 items containing the estimated mixing coefficients and
model densities. See the help page of the <a href="/link/fitMixtureModel?package=wavClusteR&version=2.6.2" rd-options="" data-mini-rdoc="wavClusteR::fitMixtureModel">fitMixtureModel</a> function
for a detailed description of the output.

model: Components of the non-parametric mixture moodel fitted on Ago2 PAR-CLIP data

Description

Usage

Arguments

format

References

See Also