Mercurial > repos > iuc > cialign
comparison macros.xml @ 0:9dce901753b9 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/cialign commit bab03e73ec98fc53e8c0eb899ab8144a775d331a
| author | iuc |
|---|---|
| date | Mon, 02 Mar 2026 15:36:38 +0000 |
| parents | |
| children |
comparison
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| -1:000000000000 | 0:9dce901753b9 |
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| 1 <macros> | |
| 2 <token name="@TOOL_VERSION@">1.1.4</token> | |
| 3 <token name="@VERSION_SUFFIX@">1</token> | |
| 4 <xml name="requirements"> | |
| 5 <requirements> | |
| 6 <requirement type="package" version="@TOOL_VERSION@">cialign</requirement> | |
| 7 </requirements> | |
| 8 </xml> | |
| 9 <xml name="help"> | |
| 10 <help><![CDATA[ | |
| 11 What this tool does | |
| 12 =================== | |
| 13 | |
| 14 CIAlign is designed to clean, interpret, and visualize multiple sequence alignments (MSAs). | |
| 15 It helps identify and remove problematic regions such as insertions, poorly aligned ends, and overly gappy sequences. This improves downstream analyses like phylogenetic inference and comparative genomics. | |
| 16 | |
| 17 It also offers tools to generate customizable visualizations, allowing users to inspect alignments and cleaning steps through compact and informative plots. | |
| 18 | |
| 19 Input | |
| 20 ===== | |
| 21 | |
| 22 CIAlign takes standard multiple sequence alignment files in FASTA format. CIAlign takes standard multiple sequence alignment files in FASTA format. | |
| 23 | |
| 24 Output | |
| 25 ====== | |
| 26 | |
| 27 CIAlign produces a cleaned alignment in FASTA format along with optional log files, summary statistics, and visualization plots. | |
| 28 | |
| 29 ]]></help> | |
| 30 </xml> | |
| 31 <xml name="citations"> | |
| 32 <citations> | |
| 33 <citation type="doi">10.7717/peerj.12983</citation> | |
| 34 </citations> | |
| 35 </xml> | |
| 36 <xml name="creator"> | |
| 37 <creator> | |
| 38 <organization name="Galaxy Europe"/> | |
| 39 <person givenName="Ahmad" familyName="Mahagna" url="https://github.com/Smkingsize"/> | |
| 40 <person givenName="Saim" familyName="Momin" url="https://github.com/SaimMomin12"/> | |
| 41 </creator> | |
| 42 </xml> | |
| 43 </macros> |