Mercurial > repos > yhoogstrate > featurecounts_valid_gff
changeset 42:70292f11ba10
Uploaded
| author | yhoogstrate |
|---|---|
| date | Mon, 03 Mar 2014 02:47:39 -0500 |
| parents | c55c0c51b634 |
| children | ec395c96e2ea |
| files | featurecounts_valid_gff.xml |
| diffstat | 1 files changed, 2 insertions(+), 1 deletions(-) [+] |
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--- a/featurecounts_valid_gff.xml Fri Feb 28 07:26:46 2014 -0500 +++ b/featurecounts_valid_gff.xml Mon Mar 03 02:47:39 2014 -0500 @@ -50,6 +50,7 @@ $extended_parameters.summarization_level $extended_parameters.contribute_to_multiple_features $extended_parameters.protocol + $extended_parameters.multimapping_counts -Q $extended_parameters.mapping_quality $extended_parameters.fragment_counting $extended_parameters.check_distance @@ -164,7 +165,7 @@ <option value=" -s 2">Stranded (reverse)</option> </param> - <param name="multimaping_counts" type="boolean" truevalue=" -M" falsevalue="" label="Count multi-mapping reads/fragments" help="If specified, multi-mapping reads/fragments will be counted (ie. a multi-mapping read will be counted up to N times if it has N reported mapping locations). The program uses the `NH' tag to find multi-mapping reads." /> + <param name="multimapping_counts" type="boolean" truevalue=" -M" falsevalue="" label="Count multi-mapping reads/fragments" help="If specified, multi-mapping reads/fragments will be counted (ie. a multi-mapping read will be counted up to N times if it has N reported mapping locations). The program uses the `NH' tag to find multi-mapping reads." /> <param name="mapping_quality" type="integer" value="0" label="Minimum read quality" help="The minimum mapping quality score a read must satisfy in order to be counted. For paired-end reads, at least one end should satisfy this criteria. 0 by default." />