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comparison merge_pcr_duplicates.xml @ 6:1bfc5a5de843 draft

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author rnateam
date Wed, 04 Nov 2015 07:18:06 -0500
parents bf5b606f1aa7
children 17ef0e0dae68
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5:e841de88235c 6:1bfc5a5de843
1 <tool id="merge_pcr_duplicates.py" name="merge_pcr_duplicates.py" version="0.1.0"> 1 <tool id="merge_pcr_duplicates.py" name="Merge PCR duplicates" version="0.1.0">
2 <description>Merge PCR duplicates according to random barcode library.</description> 2 <description>according to random barcode library.</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements" /> 6 <expand macro="requirements" />
7 <expand macro="stdio" /> 7 <expand macro="stdio" />
33 <help><![CDATA[ 33 <help><![CDATA[
34 Merge PCR duplicates according to random barcode library. 34 Merge PCR duplicates according to random barcode library.
35 35
36 Barcodes containing uncalled base 'N' are removed. 36 Barcodes containing uncalled base 'N' are removed.
37 37
38 Input: 38 Input::
39
39 * bed6 file containing alignments with fastq read-id in name field 40 * bed6 file containing alignments with fastq read-id in name field
40 * fasta library with fastq read-id as sequence ids 41 * fasta library with fastq read-id as sequence ids
41 42
42 Output: 43 Output::
44
43 * bed6 file with random barcode in name field and number of PCR duplicates as score, sorted by fields chrom, start, stop, strand, name 45 * bed6 file with random barcode in name field and number of PCR duplicates as score, sorted by fields chrom, start, stop, strand, name
44 46
45 Author: Daniel Maticzka 47 Author: Daniel Maticzka
46 Copyright: 2015 48 Copyright: 2015
47 License: Apache 49 License: Apache