Bug fixes / simple features

[alancleary]

This is a catch-all for issues related to bug fixes and simple features that can be addressed now:

High priority:

• ERROR TypeError: Cannot read properties of undefined (reading 'coordinates') #424 difficult
• javascript error in console leading to perpetual wait for search results in alignment pipeline #420 difficult
• add ability to search for gene(s) in current view #9 medium

Medium priority:

• Implement scroll-to behavior in legends #836 medium
• Auto-resize legend column #766 easy
• Drop jQuery dependency #393 easy
• Circles in dotplots represent pairs of genes and should get info regarding both in the tooltip #370 easy (could be used to add pair-wise links to JBrowse)
• re-add support for "scrolling" in microview #384 medium
• specifying source in search UI does not produce expected effect #380 medium
• CNV-induced inversions #340 medium
• Visualization click during hover causes "dangling selections" #335 medium
• GCV2 multi-comparison making segmental duplications out of short contigs? #327 medium
• Macro synteny control options from GCV1 #299 medium
• make option for not performing track querying (ie support for old multi-view behavior) #298 easy
• allow user to hide pipeline representation after successful completion? #272 easy
• investigate conditions under which inversions not represented in macrosynteny blocks #128 medium
• Add multiple alignment algorithm to search view #103 medium

Low priority:

• revive GCV1-era list of datasource descriptions in instructions page #838 easy
• Macro-synteny highlight behavior #837 easy
• consider adding ability to multi-select from region search results as is done for gene search results #339 medium
• could search results show the pairing of query terms with the matches they engendered? #338 easy
• Implement (support for) gene family linkout service #290 easy
• Parameter sensative alignment scores #163 easy
• Update manuscript links #849 easy
• Remove remaing tour code #851 easy