IGV screenshot review feedback integration

[stevekm]

A method needs to be developed to allow for manual review of IGV screenshot results by licensed clinician, followed by integration of the clinician's feedback on variants to keep or remove.

[stevekm]

Current proposed implementations for this include:

• printing a 'variant ID' in the full report next to each IGV snapshot. The ID can be copy/pasted by the clinician into an emailed reply, which can then be submitted to a script for removal of the given variant from the sample's report.

• placing IGV snapshot PNG files in a directory mounted by both the clinician's computer & the report generator's system, allowing the clinician to drag&drop the images into 'PASS' and 'FAIL' directories, which can then be parsed by a script for removal from the sample report

• developing an HTML IGV snapshot report with client-side JavaScript that allows the clinician to review all snapshots, then select which to keep/reject, and then output a summary of the selections which can be parsed by the report generator scripts to remove the selected variants.

[stevekm]

'variant ID' + removal script will likely be the best solution for this. Need to consider how this will affect database of all variants (to be implemented)

[stevekm]

Consider using 'excluded variants' file in report dir, refactor reporting scripts to check for presence, include 'Excluded Variants' section in report output.