v9 histologies file has known germline_sex_estimate

[jharenza]

What data file(s) does this issue pertain to?

histologies.tsv

What release are you using?

v9

Put your question or report your issue here.

The levels of germline_sex_estimate are below, but known should not be one of them.

> table(v9$germline_sex_estimate)

 Female   known    Male Unknown 
   1629      16    1892       1 

Looks like this occurred with v7 - was not present in v6). Please investigate @ewafula

[ewafula]

@zhangb1, here GMKF germline sex estimate file I obtained from you to update the v8 histologies file. @jharenza wants you to investigate why some records have known instead of Male or Female.
GMKF_germline_gender_est.txt

[zhangb1]

@jharenza @ewafula

the known should be all Unknown, sorry ,when I replace the format, somehow the Un got missed in the txt file.
I upload the correct one for GMKF germline gender...

GMKF_germline_gender_est_unknown.txt

[jharenza]

Thanks for clarifying @zhangb1! @ewafula can you add this as an update needed for the v10 histologies file?

[ewafula]

Sure, I will make the update.

…

On Fri, Sep 3, 2021 at 9:47 AM Jo Lynne Rokita ***@***.***> wrote: Thanks for clarifying @zhangb1 <https://github.com/zhangb1>! @ewafula <https://github.com/ewafula> can you add this as an update needed for the v10 histologies file? — You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub <#192 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAZN26ER6NSTFYLBFFJYOP3UADGXVANCNFSM5DKJAV6Q> .

[runjin326]

Closing with PR136 merged.