CLC Genomics workbench and dbSNP VCF import
0
0
Entering edit mode
13 months ago
むらい • 0

I have tried to import a dbSNV vcf file into my workbench's reference genome, but error like that occurred and i am now, not able to make dbSNV track. The error :

Time    Elapsed time    Description
Sat Aug 10 21:21:47 GMT+09:00 2024  0:00:00 Skipped line 7 of C:\Users\myname\OneDrive - affilication name \2024myfile\Dry\reference\intersection_10001.vcf: Input is not VCF format compliant: Missing required header line.

The VCF file I tried to import is like this:

##fileformat=VCFv4.1
##FILTER=<ID=q25,Description="Quality below 25">
##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT SAMPLE1
1   135 .   C   T   28  PASS    DP=5    GT:GQ:DP    1|1:28:5
1   138 .   T   C   36  PASS    DP=5    GT:GQ:DP    1|1:36:5
1   346 .   C   T   32  PASS    DP=3    GT:GQ:DP    1|1:32:3

Could you please help me with solving this issue?

VCF • 611 views
ADD COMMENT
0
Entering edit mode

Since you are paying for a CLC license it may be easiest to work with their tech support. You can also share the data directly with them to see what is going wrong.

ADD REPLY

Login before adding your answer.

Traffic: 3342 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6