shinyReport() working with QC output as well as raw files

[fjaine]

@ianjonsen @fmaron

A few users have recently requested running the visualisations from the QC output instead of raw files downloaded from the web-app. It kinda makes sense to do so and I'm wondering what it might take to make this happen?

My understanding of this is that it would slightly change the data input process and format, but from here, it would allow users to filter for their desired level of QC flag and then visualise the data accordingly. From a visualisation point of view, I believe the plots would still function as the data/columns in the files would remain the same. Thoughts?

This has been an issue for us as well at IMOS ATF where some reports we recently produced for some of our lines feature some species/detections which we know are invalid.

[fmaron]

@fjaine the input for the shiny apps can be selected by the users, and it will work if QC'd data has the same column names as the detections file. I will have to edit the function if the columns have different names.

For the receiver report, the user will still have to select the receiver metadata.

[ianjonsen]

Shouldn't be too difficult to get this working. @fmaron, not sure your time availability, but I can work on this in a week or two and post an update for you

[fmaron]

Shouldn't be too difficult to get this working. @fmaron, not sure your time availability, but I can work on this in a week or two and post an update for you

I have time to work on this during the next 2 weeks. I'll take a look at the columns needed from the QC and check if the names are the same.

[ianjonsen]

ok!