You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
I tried to submit a phasing and imputation run on a single sample but was notified that I needed at least 5 samples. Is there a way we can still run a single sample, which was available in Michigan Imputation Server 1?
In addition, I tried to rename and duplicate 5 times the SNPs as a workaround, but was told "File should be phased, but also includes unphased and/or missing genotypes! Please double-check!".
My SNPs look like this:
chr1 279709 . T C 96.64 . BaseQRankSum=-0.967;ExcessHet=3.0103;FS=0;MQ=60;MQRankSum=0;QD=24.16;ReadPosRankSum=0.967;SOR=1.609;DP=20;AF=0.5;MLEAC=1;MLEAF=0.5;AN=10;AC=5 GT:AD:DP:GQ:PGT:PID:PL:PS 0|1:1,3:4:33:0|1:279699_T_C:104,0,33:279699 0|1:1,3:4:33:0|1:279699_T_C:104,0,33:279699 0|1:1,3:4:33:0|1:279699_T_C:104,0,33:279699 0|1:1,3:4:33:0|1:279699_T_C:104,0,33:279699 0|1:1,3:4:33:0|1:279699_T_C:104,0,33:279699
chr1 292249 . C T 68.64 . BaseQRankSum=3.13;ExcessHet=3.0103;FS=0;MQ=60;MQRankSum=0;QD=3.27;ReadPosRankSum=-1.927;SOR=0.074;DP=105;AF=0.5;MLEAC=1;MLEAF=0.5;AN=10;AC=5 GT:AD:DP:GQ:PL 0/1:17,4:21:76:76,0,417 0/1:17,4:21:76:76,0,417 0/1:17,4:21:76:76,0,417 0/1:17,4:21:76:76,0,417 0/1:17,4:21:76:76,0,417
so I do have phased and unphased SNPs in my file, why would I see this error message in this case?
Thank you so much!
Jason
The text was updated successfully, but these errors were encountered:
Hi all,
I tried to submit a phasing and imputation run on a single sample but was notified that I needed at least 5 samples. Is there a way we can still run a single sample, which was available in Michigan Imputation Server 1?
In addition, I tried to rename and duplicate 5 times the SNPs as a workaround, but was told "File should be phased, but also includes unphased and/or missing genotypes! Please double-check!".
My SNPs look like this:
chr1 279709 . T C 96.64 . BaseQRankSum=-0.967;ExcessHet=3.0103;FS=0;MQ=60;MQRankSum=0;QD=24.16;ReadPosRankSum=0.967;SOR=1.609;DP=20;AF=0.5;MLEAC=1;MLEAF=0.5;AN=10;AC=5 GT:AD:DP:GQ:PGT:PID:PL:PS 0|1:1,3:4:33:0|1:279699_T_C:104,0,33:279699 0|1:1,3:4:33:0|1:279699_T_C:104,0,33:279699 0|1:1,3:4:33:0|1:279699_T_C:104,0,33:279699 0|1:1,3:4:33:0|1:279699_T_C:104,0,33:279699 0|1:1,3:4:33:0|1:279699_T_C:104,0,33:279699
chr1 292249 . C T 68.64 . BaseQRankSum=3.13;ExcessHet=3.0103;FS=0;MQ=60;MQRankSum=0;QD=3.27;ReadPosRankSum=-1.927;SOR=0.074;DP=105;AF=0.5;MLEAC=1;MLEAF=0.5;AN=10;AC=5 GT:AD:DP:GQ:PL 0/1:17,4:21:76:76,0,417 0/1:17,4:21:76:76,0,417 0/1:17,4:21:76:76,0,417 0/1:17,4:21:76:76,0,417 0/1:17,4:21:76:76,0,417
so I do have phased and unphased SNPs in my file, why would I see this error message in this case?
Thank you so much!
Jason
The text was updated successfully, but these errors were encountered: