Closed lakishadavid closed 2 years ago
I used the link in the email from Amy Williams. I have the program working fine now. Thank you. This issue can be closed.
Link to map file https://ftp.ncbi.nlm.nih.gov/hapmap/recombination/2011-01_phaseII_B37/
I'm running into an error using ./add-map-plink.pl to add the genetic map to the bim file.
I tried to use the IBIS ./add-map-plink.pl on an autosome map file created from plink map files hosted on Brian Browning's beagle website. I get the following error message for each line in the map file. (I couldn't use the maps in your documentation because the links you provide don't go anywhere.)
Argument "." isn't numeric in numeric lt (<) at ./add-map-plink.pl line 85, <MAP> line 65706.
Here are the first three lines of the autosome genetic map file. Chromosomes 1 - 22 are in the same file.
Here is the command that I use to add the genetic map file.
Any advice on what I should do to fix this error?
Note: The ./ibis command does run in that it gives me an output of
Total Genetic Length in use:2999.915039
andTotal Segments Found: 2474
.