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comparison picard_CollectRnaSeqMetrics.xml @ 17:fc288950c3b7 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit a55cff7dfc145ed17ec2ee9f6a70d51c6f9d74b6
author iuc
date Thu, 13 Apr 2017 19:09:24 -0400
parents 6741a8ace658
children 5053a18d9bc8
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16:6741a8ace658 17:fc288950c3b7
217 7. Click **done with selection** 217 7. Click **done with selection**
218 8. Click **Send query to Galaxy** 218 8. Click **Send query to Galaxy**
219 9. A new dataset will appear in the current Galaxy history 219 9. A new dataset will appear in the current Galaxy history
220 10. Use this dataset as the input for **Gene annotations in refFlat form** dropdown of this tool 220 10. Use this dataset as the input for **Gene annotations in refFlat form** dropdown of this tool
221 221
222 .. _refFlat: http://genome.ucsc.edu/goldenPath/gbdDescriptionsOld.html#RefFlat 222 .. _refFlat: https://genome.ucsc.edu/FAQ/FAQformat.html#format9
223 223
224 @description@ 224 @description@
225 225
226 REF_FLAT=File Gene annotations in refFlat form. Format described here: 226 REF_FLAT=File Gene annotations in refFlat form. Format described here:
227 http://genome.ucsc.edu/goldenPath/gbdDescriptionsOld.html#RefFlat Required. 227 https://genome.ucsc.edu/FAQ/FAQformat.html#format9 Required.
228 228
229 RIBOSOMAL_INTERVALS=File Location of rRNA sequences in genome, in interval_list format. If not specified no bases 229 RIBOSOMAL_INTERVALS=File Location of rRNA sequences in genome, in interval_list format. If not specified no bases
230 will be identified as being ribosomal. Format described here: 230 will be identified as being ribosomal. Format described here:
231 https://samtools.github.io/htsjdk/javadoc/htsjdk/htsjdk/samtools/util/IntervalList.html and can be 231 https://samtools.github.io/htsjdk/javadoc/htsjdk/htsjdk/samtools/util/IntervalList.html and can be
232 generated from BED datasetes using Galaxy's wrapper for picard_BedToIntervalList tool 232 generated from BED datasetes using Galaxy's wrapper for picard_BedToIntervalList tool