Differences

This shows you the differences between two versions of the page.

--- uk_biobank:downloading_the_data [2016/02/29 11:24]
scott /* Genotypic data */
+++ uk_biobank:downloading_the_data [2016/03/15 12:09]
luke /* Quality Control */
@@ Line 44: / Line 44: @@
+====== Quality Control ======
+We identified lists of individuals and positions to exclude from information in the UKB data and in the Axiom Array unimputed genotypes.
+  -  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.

IBG Wiki