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bioinfomaticsCSU / deepsignal

Detecting methylation using signal-level features from Nanopore sequencing reads
GNU General Public License v3.0
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HX1 Data availability #42

Closed vahidAK closed 4 years ago

vahidAK commented 4 years ago

Hi @PengNi , I was wondering if your HX1 nanopore sequencing data is available somewhere? I could not find the link to data from the paper.

Thanks, Vahid.

PengNi commented 4 years ago

Hi @vahidAK ,

We did not upload HX1 data ourself. Please check out https://hx1.wglab.org/ to access the data.

Best, Peng

vahidAK commented 4 years ago

Thanks @PengNi , I checked the link but I could not find your WGA ~5x data? it only has native hx1 data

PengNi commented 4 years ago

Hi Vahid, sorry that the WGA data haven't been uploaded yet. If you want some negative samples to do some experiments, I suggest that you select negative samples based on bisulfite sequencing data. Actually we also used part of negative samples choosen from native reads based on bisulfite sequencing in our experiments, it should have no big difference for the result.

Best, Peng

vahidAK commented 4 years ago

Thanks @PengNi , Is there any chance that you will upload that data as well? Thanks.

PengNi commented 4 years ago

@vahidAK, I'll see if I can get the permission and upload the data. I can't do it now because I'm not at school. I'll be at school next month maybe. Once I upload the data, I'll give you the link.

Best, Peng

vahidAK commented 4 years ago

I really appreciate it, @PengNi , Thanks a lot

PengNi commented 4 years ago

Hi @vahidAK , Sorry for the delay. I just asked my advisor, I am sorry that we don't own the data. If you still want to use the data, you can concact Mr Wang at Grandomics.

If you can't find his email, you can email me first (543943952@qq.com).

Best, Peng