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marbl / CHM13

The complete sequence of a human genome
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refSS regions of CHM13v2 ? #71

Open unique379r opened 1 year ago

unique379r commented 1 year ago

Hi I am looking for TSS region similar to hg38 (http://reftss.clst.riken.jp/reftss/Main_Page) that can be utilized by SQANT3_QC. Please direct me if you have any annotation.

Thanks Rupesh

arangrhie commented 1 year ago

Hi Rupesh,

Did you find what you need? I am not sure which TSS you need. Could you use one of the annotations available here?

mechealeth commented 5 months ago

Hi Rupesh,

Did you find what you need? I am not sure which TSS you need. Could you use one of the annotations available here?

Hi, I also have the same problem. I used human.refTSS_v3.1.hg38.bed file from https://reftss.riken.jp/datafiles/3.1/human/ and liftover it to hs1 using https://genome.ucsc.edu/cgi-bin/hgLiftOver , but there are around 200 sites fail to liftover. I wonder if there any refTSS for CHM13v2 assemble and I would like use it for SQANT3_QC input. thanks min