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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit c7fe7b3a7c6e1f2109868093b9ce5321c2979a24
author iuc
date Tue, 01 Nov 2022 15:08:26 +0000
parents 0d1b07907bb1
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221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
iuc
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1 <macros>
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42348f95138d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit 87337151f2f9ae1946db8b3a6da1c4f512ae135d
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2 <token name="@TOOL_VERSION@">0.8.1</token>
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221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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3 <xml name="requirements">
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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4 <requirements>
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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5 <requirement type="package" version="@TOOL_VERSION@">bandage</requirement>
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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6 </requirements>
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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7 </xml>
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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8 <xml name="version_command">
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97f832fc1267 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit ef940ee99e8bf07cfe86b273a3eda72f09003fb3"
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9 <version_command>@HEADLESS@ Bandage --version</version_command>
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221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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10 </xml>
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0d1b07907bb1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit e0d4688a59e6eeba33adcfe803ac43d0bc2863e7"
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11 <xml name="bio_tools">
0d1b07907bb1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit e0d4688a59e6eeba33adcfe803ac43d0bc2863e7"
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12 <xrefs>
0d1b07907bb1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit e0d4688a59e6eeba33adcfe803ac43d0bc2863e7"
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13 <xref type="bio.tools">bandage</xref>
0d1b07907bb1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit e0d4688a59e6eeba33adcfe803ac43d0bc2863e7"
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14 </xrefs>
0d1b07907bb1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit e0d4688a59e6eeba33adcfe803ac43d0bc2863e7"
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15 </xml>
0d1b07907bb1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit e0d4688a59e6eeba33adcfe803ac43d0bc2863e7"
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16 <token name="@HEADLESS@"><![CDATA[export QT_QPA_PLATFORM='offscreen' &&]]></token>
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221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
iuc
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17 <token name="@BANDAGE_OVERVIEW@">
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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19 **Bandage Overview**
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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21 Bandage is a GUI program that allows users to interact with the assembly graphs made by de novo assemblers such as Velvet, SPAdes, MEGAHIT and others.
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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22 De novo assembly graphs contain not only assembled contigs but also the connections between those contigs, which were previously not easily accessible. Bandage visualises assembly graphs, with connections, using graph layout algorithms. Nodes in the drawn graph, which represent contigs, can be automatically labelled with their ID, length or depth. Users can interact with the graph by moving, labelling and colouring nodes. Sequence information can also be extracted directly from the graph viewer. By displaying connections between contigs, Bandage opens up new possibilities for analysing and improving de novo assemblies that are not possible by looking at contigs alone.
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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24 Bandage works with Graphical Fragment Assembly (GFA) files. For more information about this file format, see here_
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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26 .. _here: https://gfa-spec.github.io/GFA-spec/GFA2.html
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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27 </token>
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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28 <xml name="citations">
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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29 <citations>
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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30 <citation type="doi">10.1093/bioinformatics/btv383</citation>
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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31 </citations>
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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32 </xml>
221c0d23467b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit d5e71a9c6eeb449a00c335a244e5348c9bd49c16
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33 </macros>