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GWA_tutorial
A comprehensive tutorial about GWAS and PRS
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How to confirm which sub has the lower call rate of each pair that I should remove
#8
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tongwang-en
opened
3 years ago
tongwang-en
commented
3 years ago
Generate a list of FID and IID of the individual(s) with a Pihat above 0.2, to check who had the lower call rate of the pair.
In our dataset the individual 13291 NA07045 had the lower call rate.
vi 0.2_low_call_rate_pihat.txt i 13291 NA07045
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:x
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In case of multiple 'related' pairs, the list generated above can be extended using the same method as for our lone 'related' pair.
Generate a list of FID and IID of the individual(s) with a Pihat above 0.2, to check who had the lower call rate of the pair.
In our dataset the individual 13291 NA07045 had the lower call rate.
vi 0.2_low_call_rate_pihat.txt i 13291 NA07045
Press esc on keyboard!
:x
Press enter on keyboard
In case of multiple 'related' pairs, the list generated above can be extended using the same method as for our lone 'related' pair.