Mercurial > repos > devteam > fastq_trimmer

comparison fastq_trimmer.xml @ 1:3be753901f6e draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit 33927a87ba2eee9bf0ecdd376a66241b17b3d734
author devteam
date Tue, 13 Oct 2015 12:44:54 -0400
parents feb5479a48ff
children fdff6f6a8763
comparison
equal deleted inserted replaced
0:feb5479a48ff 1:3be753901f6e
79 <param name="keep_zero_length" value="exclude_zero_length" /> 79 <param name="keep_zero_length" value="exclude_zero_length" />
80 <output name="output_file" file="fastq_trimmer_out1.fastqsanger" /> 80 <output name="output_file" file="fastq_trimmer_out1.fastqsanger" />
81 </test> 81 </test>
82 </tests> 82 </tests>
83 <help> 83 <help>
84 **What is does**
85
84 This tool allows you to trim the ends of reads. 86 This tool allows you to trim the ends of reads.
85 87
86 You can specify either absolute or percent-based offsets. Offsets are calculated, starting at 0, from the respective end to be trimmed. When using the percent-based method, offsets are rounded to the nearest integer. 88 You can specify either absolute or percent-based offsets. Offsets are calculated, starting at 0, from the respective end to be trimmed. When using the percent-based method, offsets are rounded to the nearest integer.
87 89
88 For example, if you have a read of length 36:: 90 For example, if you have a read of length 36::
112 114
113 Trimming a color space read will cause any adapter base to be lost. 115 Trimming a color space read will cause any adapter base to be lost.
114 116
115 ------ 117 ------
116 118
117 **Citation**
118
119 If you use this tool, please cite `Blankenberg D, Gordon A, Von Kuster G, Coraor N, Taylor J, Nekrutenko A; Galaxy Team. Manipulation of FASTQ data with Galaxy. Bioinformatics. 2010 Jul 15;26(14):1783-5. &lt;http://www.ncbi.nlm.nih.gov/pubmed/20562416&gt;`_
120
121
122 </help> 119 </help>
120
121 <citations>
122 <citation type="doi">10.1093/bioinformatics/btq281</citation>
123 </citations>
124
123 </tool> 125 </tool>