Error:VCF version must be v4.0 or v4.1:

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Mike_Brown

Member

Join Date: Jan 2016
Posts: 13

Error:VCF version must be v4.0 or v4.1:

01-04-2016, 08:30 AM

I want to convert vcf into matrix data by

Code:

vcftools --vcf raw_variants.vcf --out -012

But I got

Code:

VCFtools - v0.1.11
(C) Adam Auton 2009

Parameters as interpreted:
	--vcf raw_variants.vcf
	--out -012

Index file is older than variant file. Will regenerate.
Building new index file.
Error:VCF version must be v4.0 or v4.1:
You are using version VCFv4.2

What is wrong?

Tags: None

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Reply to Nine Things a Sample Prep Scientist Thinks About Before Sequencing

by GATTACAT

Love this - good data definitely starts from good input, and poor input can only give relatively poor data. I particularly like the mention of Nanodrop/absorbance based methods for quantification. It's such a toss up if you'll get an accurate reading or what amounts to a randomly generated number, and a lot of library/sequencing related issues can be traced back to poor quant.
- Channel: Articles
07-01-2026, 11:43 AM
Nine Things a Sample Prep Scientist Thinks About Before Sequencing

by SEQadmin2

I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.

Here are nine questions we think about, in roughly the order they matter, before...
- Channel: Articles
06-18-2026, 07:11 AM

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Error:VCF version must be v4.0 or v4.1:

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