comparison computeGCBias.xml @ 24:d7c9fd76e41e draft

Uploaded

23:8c452f37c896

    </outputs>
    <help>

**What it does**

This tool computes the GC bias using the method proposed by Benjamini and Speed (2012). Nucleic Acids Res. (see below for more explanations)
The output is used to plot the bias and can also be used later on to correct the bias with the tool correctGCbias.
There are two plots produced by the tool: a boxplot showing the absolute read numbers per genomic-GC bin and an x-y plot
depicting the ratio of observed/expected reads per genomic GC content bin.

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usually shows a significant bias towards reads with high GC content (>50%)

.. image:: $PATH_TO_IMAGES/QC_GCplots_input.png


You can find more details in the `computeGCBias wiki`_.

.. _computeGCBias wiki: https://github.com/fidelram/deepTools/wiki/QC#wiki-computeGCbias


**Output files**:

- Diagnostic plot

24:d7c9fd76e41e

    </outputs>
    <help>

**What it does**

This tool computes the GC bias using the method proposed by Benjamini and Speed (2012) Nucleic Acids Res. (see below for more explanations)
The output is used to plot the bias and can also be used later on to correct the bias with the tool correctGCbias.
There are two plots produced by the tool: a boxplot showing the absolute read numbers per genomic-GC bin and an x-y plot
depicting the ratio of observed/expected reads per genomic GC content bin.

-----

usually shows a significant bias towards reads with high GC content (>50%)

.. image:: $PATH_TO_IMAGES/QC_GCplots_input.png


You can find more details on the computeGCBias wiki page: computeGCBias wiki: https://github.com/fidelram/deepTools/wiki/QC#wiki-computeGCbias


**Output files**:

- Diagnostic plot