comparison autogenJB2.xml @ 40:e1a3d3221ed3 draft

planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 92901862ebe87a9c12f026608a34fbee347c4c78
author fubar
date Fri, 01 Mar 2024 02:22:44 +0000
parents bc57164eb270
children 4181e97c70a7
comparison
equal deleted inserted replaced
39:bc57164eb270 40:e1a3d3221ed3
64 </output> 64 </output>
65 </test> 65 </test>
66 </tests> 66 </tests>
67 <help><![CDATA[ 67 <help><![CDATA[
68 68
69 JBrowse2-in-Galaxy 69 Autogenerated JBrowse2
70 ================== 70 ======================
71 71
72 JBrowse2-in-Galaxy offers a highly configurable, workflow-compatible 72 Given a collection of datatypes suited for making JB2 tracks, this tool will create a working JBrowse2 configuration.
73 alternative to JBrowse1-in-Galaxy and Trackster. 73 A paf track requires a nested collection with the paf file and all the genomes used in creating it.
74 74
75 Compared to JBrowse1-in-Galaxy, there is no support for alternative codons for unusual genomes,
76 and detailed track styling is not yet implemented. Send code.
77 JBrowse1 development has now ceased in favour of JBrowse2.
78 75
79 Use and local viewing 76 Use and local viewing
80 ===================== 77 =====================
81 78
82 79
107 about how to run the command line tools to format your data, and which 104 about how to run the command line tools to format your data, and which
108 options need to be supplied and where. 105 options need to be supplied and where.
109 106
110 The JBrowse-in-Galaxy tool has been rejected by `a Galaxy IUC 107 The JBrowse-in-Galaxy tool has been rejected by `a Galaxy IUC
111 <https://github.com/galaxyproject/tools-iuc/issues>`__, reviewer. 108 <https://github.com/galaxyproject/tools-iuc/issues>`__, reviewer.
112 It is maintained by https://github.com/fubar2 who you can help you
113 with missing features or bugs in the tool. For the record, he remains unconvinced by the reviewer's logic,
114 and disturbed by the distinctly coercive approach to introducing new code,
115 compared to the more usual method of providing a working PR.
116 109
117 Options 110 Options
118 ------- 111 -------
119 112
120 **Reference or Assembly** 113 **Reference or Assembly**