Can't find site When use CLC as SNP report

[YangJingqii]

Hi, I generated txt according to the format of CLC, but there was no mutation in site_results.txt in SNPGenie, which was obviously abnormal. The reason why I wanted to generate clc was that I added some screening conditions to vcf, but I ran with the vcf before screening and it was possible to find out, I didn't know what the problem was. Could you take a look for me? Thank you very much!

Reference Position  Type    Reference   Allele  Count   Coverage    Frequency   Overlapping annotations
2378    snp A   G   18  356 5.056179775280898   CDS:P
2591    snp A   G   58  7434    0.7801990852838311  CDS:P
2594    snp C   A   107 7439    1.438365371689743   CDS:P
2596    snp C   A   63  7441    0.8466603951081844  CDS:P
2602    snp A   G   43  7428    0.5788906838987614  CDS:P
2616    snp C   A   207 7450    2.778523489932886   CDS:P
2618    snp C   A   66  7455    0.8853118712273641  CDS:P
2621    snp C   A   79  7453    1.0599758486515498  CDS:P
2623    snp C   A   46  7465    0.6162089752176825  CDS:P
2624    snp C   A   143 7467    1.9150930762019551  CDS:P

E5.txt

[singing-scientist]

HI @YangJingqii ! Thanks for the question.

The only two things I notice are (1) type should be "SNV" and (2) there should be a space after "CDS:", e.g., "CDS: P". I know those are very specific points but I hesitate to relax them, since they're exactly what CLC does (or did when I wrote this).

If that doesn't solve the problem please feel free to attached (or email) a small example set of three files so I can try running it and troubleshoot the problem.

Yours, Chase

[YangJingqii]

That works! Thank you very much!!!

[singing-scientist]

Glad to hear! Feel free to reopen issue if another problem arises

[YangJingqii]

ok ,thanks again!