Colin Diesh

Currently it uses the max value always for the scale calculation which can be significantly higher than the mean

Placeholder, need to investigate but some usages of the breakpoint split view do not show the translocation, potentially due to some off by one error at the 'displayed region' boundary...

Handle 'out of frame' exon in BRAF GENCODE data

1

this is improperly displayed by our amino acid CDS glyph UCSC vs JBrowse might be in phase column of gff, need to check

This tries to lay groundwork for doing jbrowse desktop integration tests that run in a real environment, as it is a tricky environment to mock with testing-library and there are...

Create llms.txt file on jbrowse.org site

2

Currently @GFJHogue manually fetches from github to retrieve some jbrowse docs to try to give the chatbot more context, however, creating "llm docs" might help There is currently a "standardization"...

Idea: multi-synteny track type

7

This is a special concept of making a multi-synteny display The synteny display concept in jbrowse 2 is very flexible and capable of showing arbitrary regions However, it can be...

Currently sorts by center coordinate which is not visible unless "Show center line" is toggled

Create simplified session spec for launching synteny views

1

This was done for simple linear genome views, but would aid other view types as well

reported on gitter

We have per-cigar operation tooltips but not mouseover shading, which gets a little confusing looking at large alignments (it highlights the whole alignment instead of the individual thing you're looking...