Colin Diesh

Add ability to auto-generate a GC content track in jbrowse cli

2

This PR adds the option to specify --gc on the add-assembly CLI command to auto-generate a GC content track Currently we cannot e.g. a computed view to create a GC...

Proposal: modified configuration format for display types

3

This is a somewhat experimental proposal that makes a change to the config file to use a key-value map instead of array for the displays config slot in the config...

Try to help detect whether the species you selected in your assembly matches that from your PAF

1

If you go through the PAF loading process, you may mismatch your species in column 1 or column 2, and the code then will display nothing. The code could try...

Follow up on #3025

Currently there is no way to set the default height of a track ### Discussed in https://github.com/GMOD/jbrowse-components/discussions/3028 Originally posted by **anamariaelek** June 12, 2022 I can't find a way to...

Create github actions based release process

2

We (or I) have created several failed releases because the large lerna publish cycle would fail in the middle of itself when uploading to npm I think releasing through github...

It may be useful to create a compressed version of ix files, this would transfer less data during search and result in faster response time for users Might be able...

Create method for navigating synteny datasets using gene name

1

It may be useful to "navigate synteny" based on a gene name. For example, maybe the user story is "I want to find BRCA1 in both human and mouse and...

Extra header components via prop in @jbrowse/react-linear-genome-view

1

Possible helper for @bbimber Note >"We have an embedded ReactLinearGenomeView. The component has a menu in the upper-right, which can have items added to it. Is there a way to...

Support HTML or react components for complex track descriptions

1

UCSC often has pages with full HTML descriptions of tracks. This can be useful for helping to describe complex track types Example HTML description https://ftp.ncbi.nlm.nih.gov/refseq/MANE/trackhub/MANE_select.html We can likely display contents...