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--- uk_biobank:downloading_the_data [2016/03/11 07:06]
luke
+++ uk_biobank:downloading_the_data [2020/04/22 11:35] (current)
luev6784
@@ Line 50: / Line 50: @@
-  -  All files can be found on RC at: /work/KellerLab/luke/QC_UKB_FILES
+We identified lists of individuals and positions to exclude from information in the UKB data and in the Axiom Array unimputed genotypes.
-  -  UKB and Affymetrix performed a number of QC analyses to exclude questionable positions and identify individual samples. Additional pdfs from the UKBiobank are found within /work/KellerLab/luke/QC_UKB_FILES/UK_Biobank_Axiom_Array
+  - A very brief overveiw of QC steps can be found in this .pptx file{{ :uk_biobank:2020_04_22_ukb_qc.pptx |}}.
+  -  All files can be found on RC at: /work/KellerLab/UKBiobank/genetics/raw/Quality_Control
+  -  UKB and Affymetrix performed a number of QC analyses to exclude questionable positions and identify individual samples. Additional pdfs from the UKBiobank are found within /work/KellerLab/UKBiobank/genetics/raw/Quality_Control/UK_Biobank_Axiom_Array
   -  Additional Affymetrix and UKB information can be found on their websites:
         [[http://www.ukbiobank.ac.uk/scientists-3/uk-biobank-axiom-array/|UK Biobank Axiom Array]], [[https://www.jiscmail.ac.uk/cgi-bin/webadmin?A0=UKB-GENETICS|UKB-Genetics Archive]]
   -  A list of 1068 individuals to exclude is in Exclude_individuals.poorQC.UKB_Affy_sex.id on RC.
   -  A list of 8010 positions to exclude is in duplicate.positions.excludesnps.txt on RC.
+  -  A README.txt file located on RC contains the steps used and additional information.

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