DR10 - MUTO-INTL QC

[edsu7]

No description provided.

[edsu7]

QC tsv

https://docs.google.com/spreadsheets/d/1mNglvKT4_-E94SRt_giqhjT7om66_NLF/edit?gid=610582384#gid=610582384
https://docs.google.com/spreadsheets/d/1yLWWV6Vh_c2SyPVaPTedHDpdagjXRJFG/edit?usp=sharing&ouid=104625230692579285705&rtpof=true&sd=true
https://docs.google.com/spreadsheets/d/1r9s44pky0kIDUBN83gY6Bk9JtwpiWIfW/edit?gid=1129374221#gid=1129374221

Release notes:

• DO253559 was previously missing variant calls

Current

Donor Counts	155	78	1	1
Clinical		X	X
DNA Alignment		X	X
GATK Variant		X	X	X
Sanger Variant	X	X

Old

Donor Counts	155	12	1
Clinical		X
DNA Alignment		X
GATK Variant		X	X
Sanger Variant	X	X

Donor Counts	143	1	1
Clinical		X
DNA Alignment		X
GATK Variant		X	X
Sanger Variant	X	X

Follow up

• flagged b/c of normal coverage and previously released, double check Addressed

DO250084
DO250048
DO250233
DO250202
DO250325
DO250478
DO250402
DO250451
DO250414
DO250425
DO250408

• flagged b/c of normal coverage and would be new donors, double check Addressed

DO252960
DO253009
DO253025
DO253064
DO253093
DO253008
DO253106
DO253077
DO253096
DO252977
DO253323

• missing sanger calls

DO250034
DO250055
DO250304
DO250529
DO250501
DO252982
DO253171
DO253403
DO253425 # Sanger detected contamination
DO253784 # Sanger detected contamination
DO253863
DO253471
DO253841
DO250497

• missing variant calls DO253080

Edits :

• lower coverage threshold, update release notes, update TSV
• add missing sanger calls donors
• updated workshow to reflect added donors w/exceptions

[lindaxiang]

@edsu7 let's lower the threshold for normal coverage as:
normal coverage > 15X, tumour coverage > 30X

[lindaxiang]

Looks good to me.