subGprobs

This function takes a Gprobs Beagle output and rewrites the output.

methods

Cross-species identification of novel gene candidates using the NCBI web service is provided. Further, sets of miRNA target genes can be identified by using the targetscan.org API.

Daniel Fischer

hoardeR

Collect and Retrieve Annotation Data for Various Genomic Data
Using Different Webservices

Anu Sironen

subGprobs function

<dl> <dt>file</dt>
<dd>Location of the original Beagle file (<code>String</code>).</dd> <dt>vmmk</dt>
<dd>Location of the Variant Map Master key (<code>String</code>).</dd> <dt>out</dt>
<dd>Name and location of the output file (<code>String</code>).</dd> <dt>chunkSize</dt>
<dd>For large Beagle files, the chunk size.</dd> <dt>removeInsertions</dt>
<dd>All Indels will be removed.</dd> <dt>verbose</dt>
<dd>The function gives feedback.</dd> <dt>writeOut</dt>
<dd>Logical, write the output back to the HDD.</dd></dl>

Arguments

Author

Rewrite the Gprobs File from a Beagle Output — subGprobs

<dl>

 <dt>file</dt>
<dd>Location of the original Beagle file (<code>String</code>).</dd>

 <dt>vmmk</dt>
<dd>Location of the Variant Map Master key (<code>String</code>).</dd>

 <dt>out</dt>
<dd>Name and location of the output file (<code>String</code>).</dd>

 <dt>chunkSize</dt>
<dd>For large Beagle files, the chunk size.</dd>

 <dt>removeInsertions</dt>
<dd>All Indels will be removed.</dd>

 <dt>verbose</dt>
<dd>The function gives feedback.</dd>

 <dt>writeOut</dt>
<dd>Logical, write the output back to the HDD.</dd>

</dl>

subGprobs: Rewrite the Gprobs File from a Beagle Output

Description

Usage

Value

Arguments

Author

Details