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vibansal / crisp

Code for multi-sample variant calling from sequence data of pooled or unpooled DNA samples
MIT License
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.vcf contains extra tab #22

Closed jwbusch0 closed 2 years ago

jwbusch0 commented 3 years ago

Hello vibansal,

I have generated a .vcf using crisp. I was then curious to load that file in vcfR. However, when I tried this, apparently there is an extra tab in the rows with SNP information. This prevents one from loading the .vcf using the vcfR package.

There are easy work arounds, but I thought this might be of interest to developers.

Thank you, Jeremiah

vibansal commented 3 years ago

Thanks. Can you please provide the specific location of the extra tab in the vcf file?

jwbusch0 commented 3 years ago

Hello,

I looked for the extra tab in linux with "cat -t", and this showed the tabs "^I" and a end line "^M" character. However, I could not find the position of the extra tab.

Jeremiah

From: Bansal Lab notifications@github.com Sent: Friday, November 27, 2020 9:25 AM To: vibansal/crisp crisp@noreply.github.com Cc: Busch, Jeremiah W jwbusch@wsu.edu; Author author@noreply.github.com Subject: Re: [vibansal/crisp] .vcf contains extra tab (#22)

Thanks. Can you please provide the specific location of the extra tab in the vcf file?

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vibansal commented 2 years ago

Fixed in recent updates