<p>I presume you are looking for the recently sequenced WGS data rather than the genotype data? If so, the different files can be found here: <a href="ftp://ngs.sanger.ac.uk/production/hgdp/hgdp_wgs.20190516/" rel="nofollow noreferrer">ftp://ngs.sanger.ac.uk/production/hgdp/hgdp_wgs.20190516/</a></p>
<p>Each chromsome has a seperate vcf file with a corresponding .tbi index file.</p>
<p>The gvcfs can be found here: <a href="ftp://ngs.sanger.ac.uk/production/hgdp/hgdp_wgs.20190516/gVCFs/" rel="nofollow noreferrer">ftp://ngs.sanger.ac.uk/production/hgdp/hgdp_wgs.20190516/gVCFs/</a></p>
<p>These files are more compressed and smaller in size than the regular vcfs.</p>

CC BY-SA 4.0
2020-07-29T11:11:31.973Z
Fantastic, thanks so much!
Dan Bolser
CC BY-SA 4.0
2020-07-30T09:08:43.607Z
No problem. If you feel like this has answered your question, you can close it by clicking 'accept answer'.
user438383
CC BY-SA 4.0
2022-03-16T11:16:23.477Z
Sure thing. When you upvote my question ;-P
Dan Bolser
CC BY-SA 4.0
2020-07-27T13:53:33.440Z
2020-07-27T13:53:33.440Z
user438383
<p>I can't seem to find HGDP data in VCF format.</p>
<p>Does anyone know where I can download it from?</p>
<p>Perhaps there a Snakemake pipeline for calling VCFs from this data?</p>

<vcf><variant-calling><data-download><human-genome>
Download or create VCF from Human Genome Diversity Project (HGDP)
# Download or create VCF from Human Genome Diversity Project (HGDP)

(Asked by: username_0 on 2020-07-27)

I can't seem to find HGDP data in VCF format.

Does anyone know where I can download it from?

Perhaps there a Snakemake pipeline for calling VCFs from this data?

**Tags:** vcf, variant-calling, data-download, human-genome

---

## 1 answers

### Answer by username_1 on 2020-07-27. Score: 3 | Accepted answer

I presume you are looking for the recently sequenced WGS data rather than the genotype data? If so, the different files can be found here: <ftp://ngs.sanger.ac.uk/production/hgdp/hgdp_wgs.20190516/>

Each chromsome has a seperate vcf file with a corresponding .tbi index file.

The gvcfs can be found here: <ftp://ngs.sanger.ac.uk/production/hgdp/hgdp_wgs.20190516/gVCFs/>

These files are more compressed and smaller in size than the regular vcfs.

> **Comments:**
> **username_0**: Fantastic, thanks so much!  
> **username_1**: No problem. If you feel like this has answered your question, you can close it by clicking 'accept answer'.  
> **username_0**: Sure thing. When you upvote my question ;-P  

---

