Simo

Error in get_sample_names

2

Hi, few months ago, I successfully used STITCH for imputing low coverage NIPT data. Now, I'm using it again with more samples (5069). I did not change my scripts or...

GT/GP discrepancy and INFO_SCORE reliability

11

Hi, I'm writing to report a couple of issues I noticed after imputing my data with QUILT. My observations are based on the imputation of a sample for which I...

Error in check_mclapply_OK(complete_set_of_results)

8

Hi, I'm running QUILT using a scheduler that allows me to send one job per chromosome, parallelizing the run of each one of the windows provided. In other words, each...

GRCh38 genetic map

7

Hi, I downloaded the genetic map for GRCh38 used in this paper: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7059836/ This genetic map is the one provided by Eagle and can be found here: https://alkesgroup.broadinstitute.org/Eagle/downloads/tables/ When I...

INFO SCORE across multiple samples

2

Hi, I have imputed a batch of 5000 individuals. As far as I understand, each of them has been independently imputed by QUILT. However, I have noticed that the INFO...