Question regarding dataset used in Hifiasm (UL) manuscript

[cjain7]

Dear Haoyu,

I have a follow-up question from Supplementary Table 3 of your manuscript "Scalable telomere-to-telomere assembly for diploid and polyploid genomes with double graph". Here HG002 is listed in "HPRC Year 2" category, but it is not listed among the year-2 samples on the HPRC page. I was able to locate 100kb+ reads (~15x coverage) through HPRC HG002_Data_Freeze_v1.0 but your table says that you are using UL 100kbp+ data with 31x coverage. Can you please point me to the 31x UL dataset?

Thanks,
Chirag

[chhylp123]

The HPRC team ran the Y2 test for both verkko and hifiasm. Let me double check with them.

[cjain7]

Thank you. Please do let me know when you hear back.

[cjain7]

A gentle reminder. Would it be possible to get access to the data?

[chhylp123]

Sorry for the late reply. They are at:

'''
s3://human-pangenomics/NHGRI_UCSC_panel/HG002/nanopore/ultra-long/03_08_22_R941_HG002_1_Guppy_6.1.2_5mc_cg_prom_sup.bam
s3://human-pangenomics/NHGRI_UCSC_panel/HG002/nanopore/ultra-long/03_08_22_R941_HG002_2_Guppy_6.1.2_5mc_cg_prom_sup.bam
s3://human-pangenomics/NHGRI_UCSC_panel/HG002/nanopore/ultra-long/03_08_22_R941_HG002_3_Guppy_6.1.2_5mc_cg_prom_sup.bam

[cjain7]

Great, thank you!
Closing the issue now.