DR10 - MUTO-INTL QC

[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.