variant information track .vcf files

[Jade Celis]

Hi,

I was watching a youtube video on IGV and saw that they had a variant information track.

However, when I open my vcf files, each patient has a separate track:

 

Is there a possibility to create the one track for all patients together? I tried to group the different tracks but it says that i can't group it by anything.

How can I solve this?

Kind regards,

Jade

[igv-help]

The screenshot you share is from a single VCF file with multiple samples.  It appears your files have an individual VCF file for each sample.  There is no way to merge these in IGV,  you would need to merge the VCF files to do this.   There might be a tool to do this,  I am not sure.

[Jade Celis]

Thank you for your answer!

Op vr 31 mei 2024 om 23:37 schreef igv-help <igv-...@googlegroups.com>:

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[igv-help]

I think "bcftools merge" can create a merged file from multiple individual files, see https://samtools.github.io/bcftools/bcftools.html#merge

[Jade Celis]

Thank you for the tip, I tried it out and it worked!

Kind regards,

Jade

Op woensdag 5 juni 2024 om 18:13:18 UTC+2 schreef igv-help: