depmap_mutationCalls() returning metadata table about depmap

[imkeller]

Also, the ensembl_id in the table returned by depmap_TPM() looks like an entrez ID.

[lgatto]

Thank you for the issue, Katharina. Regarding

It seems like the depmap_mutationCalls() function is returning the metadata table. mutationCalls_19Q3() returns the correct mutation data.

there was indeed a bug where the copy numbers were returned instead of mutation calls, which should be fixed in GitHub, and soon on Bioconductor.

And indeed, the id isn't ensembl, but suspiciously looks like an entrez id. Will be fixed too.

[lgatto]

@tfkillian - I have fixed this in the script that generates the data. Could you update the data and update it on ExperimentHub, please.

[lgatto]

Pushed to Bioc, but waiting that the actual data is updated before closing the issue.

[lgatto]

@tfkillian - I have fixed this in the script that generates the data. Could you update the data and update it on ExperimentHub, please.

Has this been done? New release is planned today!

[tfkillian]

@lgatto This update will be pushed with the next data release.

[tfkillian]

All TPM datasets with Entrez ID have been updated and now are available on EH. @lgatto you can close this issue