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Thanks, Justin!Sergey and I plan to assemble the PacBio trio data. We should have assemblies of the parents done by the end of this month and the son sometime in June. We will distribute these to the group as soon as we have them.Best,-Adam
On Mon, May 18, 2015 at 4:25 PM, Justin Zook <justi...@gmail.com> wrote:
We are pleased to announce two new PacBio datasets that are now on the GIAB FTP site:1. In a collaboration between NIST and Mt. Sinai School of Medicine, we have completed PacBio sequencing of the Ashkenazim Jewish trio that is a candidate NIST Reference Material. Raw data is on the FTP site, with ~69x coverage of the son, 32x on the father, and 30x on the mother. ~90% of the data for each genome is from P6-C4 chemistry and the remaining from P5-C3. The N50 read length is ~11kb. All of these data are public without embargo, but we encourage you to participate in our GIAB Analysis Group if you are interested in analyzing these data. The data and a readme with further information are available at:Note that we plan to put the h5 files in the SRA and in the data directory as well in the coming weeks, and the analysis group is working on mapping these data and bam files will be uploaded as well.2. Mt. Sinai School of Medicine has also kindly uploaded their PacBio sequencing for NA12878 to our GIAB ftp. They have uploaded the raw h5 files as well as a vcf containing SV calls, error-corrected reads, and a bam file. Look for their paper in Nature Methods to be published soon! Their uploaded files and a readme with more information are at:Cheers,Justin Zook
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Other than Adam's note about assembling these, has anyone started to work with these data? Im interested to look at them for SV calling with my postdoc Fritz but dont want to duplicate efforts.Thank youMike
On Monday, May 18, 2015 at 4:52:41 PM UTC-4, Adam Phillippy wrote:
Thanks, Justin!Sergey and I plan to assemble the PacBio trio data. We should have assemblies of the parents done by the end of this month and the son sometime in June. We will distribute these to the group as soon as we have them.Best,-Adam
On Mon, May 18, 2015 at 4:25 PM, Justin Zook <justi...@gmail.com> wrote:
We are pleased to announce two new PacBio datasets that are now on the GIAB FTP site:1. In a collaboration between NIST and Mt. Sinai School of Medicine, we have completed PacBio sequencing of the Ashkenazim Jewish trio that is a candidate NIST Reference Material. Raw data is on the FTP site, with ~69x coverage of the son, 32x on the father, and 30x on the mother. ~90% of the data for each genome is from P6-C4 chemistry and the remaining from P5-C3. The N50 read length is ~11kb. All of these data are public without embargo, but we encourage you to participate in our GIAB Analysis Group if you are interested in analyzing these data. The data and a readme with further information are available at:Note that we plan to put the h5 files in the SRA and in the data directory as well in the coming weeks, and the analysis group is working on mapping these data and bam files will be uploaded as well.2. Mt. Sinai School of Medicine has also kindly uploaded their PacBio sequencing for NA12878 to our GIAB ftp. They have uploaded the raw h5 files as well as a vcf containing SV calls, error-corrected reads, and a bam file. Look for their paper in Nature Methods to be published soon! Their uploaded files and a readme with more information are at:Cheers,Justin Zook
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