Hi Every one
I am a bit stuck at this error from Michigan Imputation Server, does any one know what this error means and any hint to fix?
Error: More than 100 obvious strand flips have been detected. Please check strand. Imputation cannot be started!
Statistics:
Alternative allele frequency > 0.5 sites: 0
Reference Overlap: 99.80%
Match: 426,485
Allele switch: 66,772
Strand flip: 23,263
Strand flip and allele switch: 13,805
A/T, C/G genotypes: 642
Filtered sites:
Filter flag set: 0
Invalid alleles: 0
Duplicated sites: 286
NonSNP sites: 0
Monomorphic sites: 0
Allele mismatch: 465
SNPs call rate < 90%: 0
Thanks
Hello, have you solved this error message“Error: More than 100 obvious strand flips have been detected. Please check strand. Imputation cannot be started!”.I am having the same problem now and I hope to get your help. Thank you
Hello, I used Beagle instead of Michigan Imputation Server and it works with me.