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33A viewer for multiple alignment format (MAF) files in JBrowse 2
44
5- This is a port of the JBrowse 1 plugin https://github.com/cmdcolin/mafviewer to
6- JBrowse 2
7-
85![ ] ( img/1.png )
96
107## Demo
@@ -18,6 +15,7 @@ This plugin supports three input formats:
18151 . ** BigMaf** - UCSC BigMaf format (.bb files)
19162 . ** MAF tabix** - bgzip-compressed MAF converted to BED format with tabix index
20173 . ** TAF (Taffy)** - bgzip-compressed TAF format with .tai index
18+ (https://github.com/ComparativeGenomicsToolkit/taffy )
2119
2220## GUI usage (e.g. in JBrowse Desktop)
2321
@@ -41,7 +39,7 @@ Then use the custom "Add track workflow":
4139 "plugins" : [
4240 {
4341 "name" : " MafViewer" ,
44- "url" : " https://unpkg.com /jbrowse-plugin-mafviewer/dist/jbrowse-plugin-mafviewer.umd.production.min.js"
42+ "url" : " https://jbrowse.org/plugins /jbrowse-plugin-mafviewer/dist/jbrowse-plugin-mafviewer.umd.production.min.js"
4543 }
4644 ]
4745}
@@ -260,3 +258,8 @@ short alignment blocks:
260258taffy view -i file.maf | taffy norm | bgzip > out.taf.gz
261259taffy index -i out.taf.gz
262260```
261+
262+ ## Footnote
263+
264+ This is a port of the JBrowse 1 plugin https://github.com/cmdcolin/mafviewer to
265+ JBrowse 2
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