Entering edit mode
3.8 years ago
anamaria
▴
220
Hello,
as I understand in order to do imputation on MACH I have to convert my plink files to Merlin format.
I was using mega2 but I am getting this I/O error. I do have space on my disk and I do have write permissions so that should not be the problem. Errors I am seeing are these:
DB sqlite3_exec (file "dbmega2.db") failed: #10:disk I/O error
DB prep "INSERT INTO int_table(key, value) VALUES(?, ?);" (file "dbmega2.db") failed: #10:disk I/O error
and they are the same when I use .ped .map files or .bim, .fam, .bed files
I am wondering if I am entering some options in mega2 wrong. the only things I selected are these: Please enter file stem > outputZ12 --missing-phenotype -9
and my .fam file looks like this:
fam0110_G110 fam0110_G110 0 0 2 -9
fam0113_G113 fam0113_G113 0 0 2 -9
fam0114_G115 fam0114_G115 0 0 1 -9
...
It is important for me to use MACH for imputation because I have to replicate some old results.
Do you maybe know any other software for converting plink to merlin format?
