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GMOD / jbrowse-components

Source code for JBrowse 2, a modern React-based genome browser
https://jbrowse.org/jb2
Apache License 2.0
205 stars 61 forks source link

Fix handling of "." in VCF ALT field #4566

Closed cmdcolin closed 2 weeks ago

cmdcolin commented 2 weeks ago

was seen in office hours appointment that jbrowse crashed on this because we assumed ALT to be non-null (the . is turned into null by the parser)

the . in ALT field can be seen in example 1.1 in the VCF 4.3 spec pdf, it indicates "a site that is called monomorphic reference (i.e. with no alternate alleles)"