Thank you for developing Gimpute. I looking forward to use you pipeline for imputation and have some questions I hope you can help me with.
I have data from PsycArrayB (37) and read in your instruktions that there are two types of geneotyping chip annotation file: "SNP" and "rs" . PsychChipB is a mix of SNP and rs-numbers.
So my qustion is: is the rs-number used in the imputation or is it enough with position and strand? If the rs-number is used, are the non-rs probes exluded and should I translate as many as possible probeIDs to rs-number and rename the probe IDs?
Hi,
Thank you for developing Gimpute. I looking forward to use you pipeline for imputation and have some questions I hope you can help me with.
I have data from PsycArrayB (37) and read in your instruktions that there are two types of geneotyping chip annotation file: "SNP" and "rs" . PsychChipB is a mix of SNP and rs-numbers.
So my qustion is: is the rs-number used in the imputation or is it enough with position and strand? If the rs-number is used, are the non-rs probes exluded and should I translate as many as possible probeIDs to rs-number and rename the probe IDs?
Cheers, Christian