getAllResults

<code>FourC</code> object for which z-scores and differences
have been calculated.

object

Additional parameters that can be passed to <code>results</code>.


Using the <code>DESEeq2</code> function <code>results</code>,
<code>getAllResults</code> extracts results from a FourCSeq analysis
giving base means across samples,
log2 fold changes, standard errors, test statistics,
p-values and adjusted p-values for all pair-wise
conditions tested.


FourCSeq is an R package dedicated to the analysis of
(multiplexed) 4C sequencing data. The package provides a
pipeline to detect specific interactions between DNA elements
and identify differential interactions between conditions. The
statistical analysis in R starts with individual bam files for
each sample as inputs. To obtain these files, the package
contains a python script (extdata/python/demultiplex.py) to
demultiplex libraries and trim off primer sequences. With a
standard alignment software the required bam files can be then
be generated.

Felix A Klein

FourCSeq

Package analyse 4C sequencing data

getAllResults function

Using the <code>DESEeq2</code> function <code>results</code>,
<code>getAllResults</code> extracts results from a FourCSeq analysis
giving base means across samples,
log2 fold changes, standard errors, test statistics,
p-values and adjusted p-values for all pair-wise
conditions tested.

getAllResults: FourCSeq analysis results

Description

Usage

Arguments

Value

See Also

Examples