| Previous changeset 10:5d969cb56112 (2012-12-07) Next changeset 12:62a1de8c8aae (2013-03-11) |
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Commit message:
Removed sorting notice from help |
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modified:
htseq-count.xml |
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| diff -r 5d969cb56112 -r f320093f1e8e htseq-count.xml --- a/htseq-count.xml Fri Dec 07 14:35:44 2012 -0500 +++ b/htseq-count.xml Mon Dec 10 13:36:54 2012 -0500 |
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| @@ -178,10 +178,6 @@ comparative ChIP-Seq, the features might be binding regions from a pre-determined list. -**Paired-end Data MUST be sorted by QUERY NAME first** - -This tool requires that paired-end data be sorted by query name, which is NOT the default for Galaxy. Using the Picard Paired Read Mate Fixer with Query name sort FIRST is required for paired end data. - Overlap Modes ------------- @@ -195,11 +191,13 @@ .. image:: /static/images/count_modes.png :width: 500 + Strandedness ------------ **Important**: The default for strandedness is yes. If your RNA-Seq data has not been made with a strand-specific protocol, this causes half of the reads to be lost. Hence, make sure to set the option Stranded to 'No' unless you have strand-specific data! + Output ------ |