Mercurial > repos > devteam > fastq_to_tabular

annotate fastq_to_tabular.xml @ 4:4b347702c4aa draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit d4ced60a941c4c4a2fe95de9c09a10086810b387"
author iuc
date Wed, 19 Feb 2020 12:35:20 -0500
parents 614a63f14adf
children 43807a65369f
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
4
4b347702c4aa "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit d4ced60a941c4c4a2fe95de9c09a10086810b387"
iuc
parents: 3
diff changeset
1 <tool id="fastq_to_tabular" name="FASTQ to Tabular" version="@TOOL_VERSION@">
2
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
2 <description>converter</description>
4
4b347702c4aa "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit d4ced60a941c4c4a2fe95de9c09a10086810b387"
iuc
parents: 3
diff changeset
3 <macros>
4b347702c4aa "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit d4ced60a941c4c4a2fe95de9c09a10086810b387"
iuc
parents: 3
diff changeset
4 <import>macros.xml</import>
4b347702c4aa "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit d4ced60a941c4c4a2fe95de9c09a10086810b387"
iuc
parents: 3
diff changeset
5 </macros>
4b347702c4aa "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit d4ced60a941c4c4a2fe95de9c09a10086810b387"
iuc
parents: 3
diff changeset
6 <expand macro="requirements"/>
3
614a63f14adf "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit 31edb920789fbd080260f853bc856be72fa7cfa8"
devteam
parents: 2
diff changeset
7 <edam_topics>
614a63f14adf "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit 31edb920789fbd080260f853bc856be72fa7cfa8"
devteam
parents: 2
diff changeset
8 <edam_topic>topic_0622</edam_topic>
614a63f14adf "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit 31edb920789fbd080260f853bc856be72fa7cfa8"
devteam
parents: 2
diff changeset
9 </edam_topics>
614a63f14adf "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit 31edb920789fbd080260f853bc856be72fa7cfa8"
devteam
parents: 2
diff changeset
10 <edam_operations>
614a63f14adf "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit 31edb920789fbd080260f853bc856be72fa7cfa8"
devteam
parents: 2
diff changeset
11 <edam_operation>operation_0233</edam_operation>
614a63f14adf "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit 31edb920789fbd080260f853bc856be72fa7cfa8"
devteam
parents: 2
diff changeset
12 </edam_operations>
2
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
13 <command><![CDATA[
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
14 gx-fastq-to-tabular '$input_file' '$output_file' $descr_columns '${input_file.extension[len('fastq'):]}'
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
15 ]]></command>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
16 <inputs>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
17 <param name="input_file" type="data" format="fastqsanger,fastqcssanger,fastqillumina,fastqsolexa,fastqsanger.gz,fastqcssanger.gz,fastqillumina.gz,fastqsolexa.gz,fastqsanger.bz2,fastqcssanger.bz2,fastqillumina.bz2,fastqsolexa.bz2" label="FASTQ file to convert" />
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
18 <param name="descr_columns" type="integer" min="1" value="1" label="How many columns to divide title string into?" help="Typically 2 to take the ID (first word) and decription (rest) as two columns, or 1 to give a single column" />
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
19 </inputs>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
20 <outputs>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
21 <data name="output_file" format="tabular" />
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
22 </outputs>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
23 <tests>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
24 <!-- basic test -->
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
25 <test>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
26 <param name="input_file" value="sanger_full_range_original_sanger.fastqsanger" ftype="fastqsanger" />
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
27 <param name="descr_columns" value="1"/>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
28 <output name="output_file" file="fastq_to_tabular_out_1.tabular" />
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
29 </test>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
30 <!-- compression test -->
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
31 <test>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
32 <param name="input_file" value="sanger_full_range_original_sanger.fastqsanger.gz" ftype="fastqsanger.gz" />
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
33 <param name="descr_columns" value="1"/>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
34 <output name="output_file" file="fastq_to_tabular_out_1.tabular" />
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
35 </test>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
36 <!-- color space test -->
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
37 <test>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
38 <param name="input_file" value="sanger_full_range_as_cssanger.fastqcssanger" ftype="fastqcssanger" />
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
39 <param name="descr_columns" value="1"/>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
40 <output name="output_file" file="fastq_to_tabular_out_2.tabular" />
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
41 </test>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
42 <!-- split title into columns -->
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
43 <test>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
44 <param name="input_file" value="sanger_full_range_original_sanger.fastqsanger" ftype="fastqsanger" />
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
45 <param name="descr_columns" value="2"/>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
46 <output name="output_file" file="fastq_to_tabular_out_3.tabular" />
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
47 </test>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
48 </tests>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
49 <help><![CDATA[
0
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
50 **What it does**
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
51
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
52 This tool converts FASTQ sequencing reads to a Tabular file.
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
53
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
54 It is conventional to take the first word of the FASTQ "@" title line as the identifier, and any remaining text to be a free form description.
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
55 It is therefore often useful to split this text into two columns in Galaxy (identifier and any description) by setting **How many columns to divide title string into?** to **2**.
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
56 In some cases the description can be usefully broken up into more columns -- see the examples .
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
57
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
58 Tab characters, if present in the source FASTQ title, will be converted to spaces.
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
59
2
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
60 -----
0
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
61
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
62 **Example**
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
63
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
64 Consider the following two 454 reads in Sanger FASTQ format (using line wrapping for display, but do note not all tools will accept line wrapped FASTQ files)::
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
65
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
66 @FSRRS4401BE7HA [length=395] [gc=36.46] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=95]
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
67 tcagTTAAGATGGGATAATATCCTCAGATTGCGTGATGAACTTTGTTCTGGTGGAGGAGAAGGAAGTGCATTCGACGTAT
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
68 GCCCGTTTGTCGATATTTGtatttaaagtaatccgtcacaaatcagtgacataaatattatttagatttcgggagcaact
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
69 ttatttattccacaagcaggtttaaattttaaatttaaattattgcagaagactttaaattaacctcgttgtcggagtca
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
70 tttgttcggttattggtcgaaagtaaccncgggaagtgccgaaaactaacaaacaaaagaagatagtgaaattttaatta
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
71 aaanaaatagccaaacgtaactaactaaaacggacccgtcgaggaactgccaacggacgacacagggagtagnnn
3
614a63f14adf "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit 31edb920789fbd080260f853bc856be72fa7cfa8"
devteam
parents: 2
diff changeset
72 +FSRRS4401BE7HA [length=395] [gc=36.46] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=95]
0
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
73 FFFDDDDDDDA666?688FFHGGIIIIIIIIIIIIIIIIIIHHHIIIIIIIIIGHGFFFFF====DFFFFFFFFFFFFFF
2
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
74 D???:3104/76=:5...4.3,,,366////4<ABBAAA=CCFDDDDDDDD:666CDFFFF=<ABA=;:333111<===9
3
614a63f14adf "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit 31edb920789fbd080260f853bc856be72fa7cfa8"
devteam
parents: 2
diff changeset
75 9;B889FFFFFFDDBDBDDD=8844231..,,,-,,,,,,,,1133..---17111,,,,,22555131121.--.,333
0
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
76 11,.,,3--,,.,,--,3511123..--!,,,,--,----9,,,,8=,,-,,,-,,,,---26:9:5-..1,,,,11//,
2
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
77 ,,,!,,1917--,,,,-3.,--,,17,,,,---+11113.030000,,,044400036;96662.//;7><;!!!
0
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
78 @FSRRS4401BRRTC [length=145] [gc=38.62] [flows=800] [phred_min=0] [phred_max=38] [trimmed_length=74]
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
79 tcagCCAGCAATTCCGACTTAATTGTTCTTCTTCCATCATTCATCTCGACTAACAGTTCTACGATTAATGAGTTTGGCtt
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
80 taatttgttgttcattattgtcacaattacactactgagactgccaaggcacncagggataggnn
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
81 +FSRRS4401BRRTC [length=145] [gc=38.62] [flows=800] [phred_min=0] [phred_max=38] [trimmed_length=74]
2
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
82 FFFFFFFFFDDDDFFFFGFDDDDBAAAAA=<4444@@B=555:BBBBB@@?8:8<?<89898<84442;==3,,,514,,
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
83 ,11,,,.,,21777555513,..--1115758.//34488><<;;;;9944/!/4,,,57855!!
0
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
84
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
85 By default this is converted into a 3 column tabular file, with the full FASTQ title used as column 1:
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
86
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
87 =================================================================================================== ============== ==============
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
88 FSRRS4401BE7HA [length=395] [gc=36.46] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=95] tcagTTAA...nnn FFFDDDDD...!!!
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
89 FSRRS4401BRRTC [length=145] [gc=38.62] [flows=800] [phred_min=0] [phred_max=38] [trimmed_length=74] tcagCCAG...gnn FFFFFFFF...5!!
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
90 =================================================================================================== ============== ==============
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
91
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
92 If you specified the title should be turned into 2 columns, you'd get 4 columns in total:
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
93
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
94 ============== ==================================================================================== ============== ==============
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
95 FSRRS4401BE7HA [length=395] [gc=36.46] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=95] tcagTTAA...nnn FFFDDDDD...!!!
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
96 FSRRS4401BRRTC [length=145] [gc=38.62] [flows=800] [phred_min=0] [phred_max=38] [trimmed_length=74] tcagCCAG...gnn FFFFFFFF...5!!
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
97 ============== ==================================================================================== ============== ==============
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
98
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
99 Similarly, for this example treating the title string as 7 columns makes sense:
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
100
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
101 ============== ============ ========== =========== ============= ============== =================== ============== ==============
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
102 FSRRS4401BE7HA [length=395] [gc=36.46] [flows=800] [phred_min=0] [phred_max=40] [trimmed_length=95] tcagTTAA...nnn FFFDDDDD...!!!
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
103 FSRRS4401BRRTC [length=145] [gc=38.62] [flows=800] [phred_min=0] [phred_max=38] [trimmed_length=74] tcagCCAG...gnn FFFFFFFF...5!!
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
104 ============== ============ ========== =========== ============= ============== =================== ============== ==============
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
105
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
106 Note the sequences and quality strings have been truncated for display purposes in the above tables.
2
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
107 ]]></help>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
108 <citations>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
109 <citation type="doi">10.1093/bioinformatics/btq281</citation>
ccf4e1d1fcbe planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_to_tabular commit f2582539542b33240234e8ea6093e25d0aee9b6a
devteam
parents: 1
diff changeset
110 </citations>
0
bc9269529e88 Imported from capsule None
devteam
parents:
diff changeset
111 </tool>