Mercurial > repos > devteam > fastq_trimmer
comparison fastq_trimmer.xml @ 1:e0cfb5a703ce draft
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_trimmer commit a1517c9d22029095120643bbe2c8fa53754dd2b7
| author | devteam |
|---|---|
| date | Wed, 11 Nov 2015 12:42:58 -0500 |
| parents | 0b9feb0ed628 |
| children | 430b9da91435 |
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| 0:0b9feb0ed628 | 1:e0cfb5a703ce |
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| 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. <http://www.ncbi.nlm.nih.gov/pubmed/20562416>`_ | |
| 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> |