Mercurial > repos > iuc > seqtk
annotate seqtk_dropse.xml @ 13:8aac82d2b0d8 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seqtk commit 3c29d3c8710ca23b4c59c2cf8501697331a65ac0-dirty
| author | iuc |
|---|---|
| date | Fri, 16 Oct 2015 13:16:55 -0400 |
| parents | 55e75a28fde7 |
| children | 16f2535c08bf |
| rev | line source |
|---|---|
| 0 | 1 <?xml version="1.0"?> |
| 2 <tool id="seqtk_dropse" name="seqtk_dropse" version="@WRAPPER_VERSION@.0"> | |
| 3 <description>drop unpaired from interleaved Paired End FASTA/Q</description> | |
| 4 <macros> | |
| 5 <import>macros.xml</import> | |
| 6 </macros> | |
| 7 <expand macro="requirements"/> | |
| 8 <expand macro="stdio"/> | |
| 9 <command><![CDATA[seqtk dropse | |
| 10 $in_file | |
| 11 > $default]]></command> | |
| 12 <inputs> | |
| 13 <expand macro="in_faq"/> | |
| 14 </inputs> | |
| 15 <outputs> | |
| 16 <data format_source="in_file" hidden="false" name="default" label="Only paired-end reads from $in_file.name"/> | |
| 17 </outputs> | |
| 18 <tests> | |
| 19 <test> | |
| 20 <param name="in_file" value="seqtk_dropse.fq"/> | |
| 21 <output name="default" file="seqtk_dropse.out" ftype="fastq"/> | |
| 22 </test> | |
| 23 </tests> | |
| 24 <help><![CDATA[ | |
| 25 **What it does** | |
| 26 | |
| 27 Remove unpaired reads in an interleaved paired-end FASTA/Q file. Given a fastq file with unpaired reads: | |
| 28 | |
| 29 :: | |
| 30 | |
| 31 @test-6/1 | |
| 32 AGCTTGACGC | |
| 33 + | |
| 34 ?.HCF@C>>F | |
| 35 @test-6/2 | |
| 36 TGCGAAGACC | |
| 37 + | |
| 38 >2?A?A@@7? | |
| 39 @test-4/1 | |
| 40 CTTGACGCTG | |
| 41 + | |
| 42 I@>3EFCG@C | |
| 43 @test-2/1 | |
| 44 AGACCAAAAT | |
| 45 + | |
| 46 ??><6E?IFC | |
| 47 @test-2/2 | |
| 48 CTGGCGAATT | |
| 49 + | |
| 50 ?=?*?A?<?@ | |
| 51 | |
| 52 This tool will remove the offending reads (test-4/1), leaving just the paired data. | |
| 53 | |
| 54 :: | |
| 55 | |
| 56 @test-6/1 | |
| 57 AGCTTGACGC | |
| 58 + | |
| 59 ?.HCF@C>>F | |
| 60 @test-6/2 | |
| 61 TGCGAAGACC | |
| 62 + | |
| 63 >2?A?A@@7? | |
| 64 @test-2/1 | |
| 65 AGACCAAAAT | |
| 66 + | |
| 67 ??><6E?IFC | |
| 68 @test-2/2 | |
| 69 CTGGCGAATT | |
| 70 + | |
| 71 ?=?*?A?<?@ | |
| 72 | |
| 73 | |
| 74 @ATTRIBUTION@ | |
|
7
55e75a28fde7
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seqtk commit 344140b8df53b8b7024618bb04594607a045c03a
iuc
parents:
0
diff
changeset
|
75 ]]></help> |
|
55e75a28fde7
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seqtk commit 344140b8df53b8b7024618bb04594607a045c03a
iuc
parents:
0
diff
changeset
|
76 <expand macro="citation" /> |
| 0 | 77 </tool> |