Hello,
I am interested in downloading following data:
Homo sapiens Human Dai HGDP01307 HGDP01307
Homo sapiens Human French HGDP00521 HGDP00521
Homo sapiens Human Han HGDP00778 HGDP00778
Homo sapiens Human Karitiana HGDP00998 HGDP00998
Homo sapiens Human Mandenka HGDP01284 HGDP01284
Homo sapiens Human Mbuti HGDP00456 HGDP00456
Homo sapiens Human Papuan HGDP00542 HGDP00542
Homo sapiens Human San HGDP01029 HGDP01029
Homo sapiens Human Sardinian HGDP00665 HGDP00665
These are originally mentioned in Prado-Martinez paper (Great ape genetic diversity and population history) and subsequently in many others. For some reason, I cannot find source of raw data (fastq) for all these and would appreciate help. These are supposed to be 100 bp reads.
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Biomonika (Noolean)
Look at here. Note that these data were initially produced for the Denisova paper. The great ape paper just reused the data.
EDIT: hmm... I could not find a direct download link. It was there on the page. It seems that now you have to use gridFTP, which is unfortunate. EDIT2: well, you even can't download BAMs...
Thanks for the link to the original data source. I wrote them email to hgvp_request@simonsfoundation.org, hopefully they will get back to me.
The email just returned to me as unsuccessful.
Thanks. I downloaded fastq files for HGDP01307 from your first link and those fastq files seem to be tiny. Not sure if it's exactly the same dataset.
I had a look at the decompressed files and they looked sensible to me but if you are concerned (and while you wait to hear from Simons Foundation), it may be worth contacting the ENA support team. If the files are corrupted they will be able to fix the problem and provide the corrected version. I can see the BAM files and their indexes are available from the Max Planck page but not FASTAQ.
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