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annotate snpEff_2_1a/galaxy/snpSift_annotate.xml @ 0:f8eaa3f8194b default tip

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Uploaded snpEff_v2_1a_core.tgz from Pablo Cingolani
author greg
date Fri, 20 Apr 2012 14:47:09 -0400
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f8eaa3f8194b Uploaded snpEff_v2_1a_core.tgz from Pablo Cingolani
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1 <tool id="snpSift_annotate" name="SnpSift Annotate" version="1.0">
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2 <description>Annotate SNPs from dbSnp</description>
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3 <!--
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4 You will need to change the path to wherever your installation is.
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5 You can change the amount of memory used, just change the -Xmx parameter (e.g. use -Xmx2G for 2Gb of memory)
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6 -->
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7 <command>java -Xmx6G -jar /home/pcingola/tools/SnpSift.jar annotate -q $dbSnp $input > $output </command>
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8 <inputs>
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9 <param format="Tabular" name="input" type="data" label="VCF input"/>
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10 <param format="Tabular" name="dbSnp" type="data" label="dbSnp in VCF format"/>
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11 </inputs>
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12 <outputs>
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13 <data format="tabular" name="output" />
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14 </outputs>
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15
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16 <help>
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17
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18 This is typically used to annotate IDs from dbSnp.
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20 For details about this tool, please go to http://snpeff.sourceforge.net/SnpSift.html#annotate
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21
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22 </help>
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23 </tool>
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