Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

error of vcf format #67

Open
songeric1107 opened this issue Jan 13, 2022 · 1 comment
Open

error of vcf format #67

songeric1107 opened this issue Jan 13, 2022 · 1 comment

Comments

@songeric1107
Copy link

keep getting the errors as:

Vartrix error. v1.1.22.
Error: failed to open BCF/VCF from "genome1K.phase3.SNP_AF5e2.chr1toX.hg38.mod2.vcf"

the vcf file looks like the following:

#CHROM POS ID REF ALT QUAL FILTER INFO
chr1 11008 rs575272151 C G 100 PASS AF=0.0880591
chr1 11012 rs544419019 C G 100 PASS AF=0.0880591
chr1 13116 rs62635286 T G 100 PASS AF=0.0970447
chr1 13118 rs200579949 A G 100 PASS AF=0.0970447
chr1 13273 rs531730856 G C 100 PASS AF=0.0950479
chr1 14464 rs546169444 A T 100 PASS AF=0.0958466
chr1 14599 rs531646671 T A 100 PASS AF=0.147564
chr1 14604 rs541940975 A G 100 PASS AF=0.147564
chr1 14930 rs75454623 A G 100 PASS AF=0.482228
chr1 15211 rs78601809 T G 100 PASS AF=0.609026
chr1 15274 rs62636497 A G,T 100 PASS AF=0.347244,0.640974
chr1 15820 rs2691315 G T 100 PASS AF=0.410543
chr1 18849 rs533090414 C G 100 PASS AF=0.951877
chr1 30923 rs806731 G T 100 PASS AF=0.872404
chr1 49298 rs200943160 T C 100 PASS AF=0.782149
chr1 49554 rs539322794 A G 100 PASS AF=0.063099
chr1 51479 rs116400033 T A 100 PASS AF=0.128195
chr1 52238 rs2691277 T G 100 PASS AF=0.921725
chr1 54490 rs141149254 G A 100 PASS AF=0.0960463
chr1 54716 rs569128616 C T 100 PASS AF=0.289137
chr1 55164 rs3091274 C A 100 PASS AF=0.923323
chr1 55545 rs28396308 C T 100 PASS AF=0.239217
chr1 58814 rs114420996 G A 100 PASS AF=0.109026
chr1 59040 rs62637815 T C 100 PASS AF=0.0615016
chr1 60351 rs62637817 A G 100 PASS AF=0.0549121
chr1 62777 rs528401309 A T 100 PASS AF=0.25639
chr1 63268 rs75478250 T C 100 PASS AF=0.353035
chr1 63671 rs80011619 G A 100 PASS AF=0.1875

@Cathy94
Copy link

Cathy94 commented Jul 6, 2023

Hello, I also met the problem, could you tell me how to solve this? Thank you!

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

2 participants