welch-lab / liger

R package for integrating and analyzing multiple single-cell datasets
GNU General Public License v3.0
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scHi-C #100

Closed BenxiaHu closed 5 years ago

BenxiaHu commented 5 years ago

Can I use Liger to analyze scHi-C data? best,

jw156605 commented 5 years ago

I haven't tried LIGER on Hi-C data. The challenge is how to process the Hi-C data (a matrix per cell) into gene-level measurements (a vector per cell). For example, you might determine, for each gene locus, whether it is in the A or B compartment. If you have a way to make gene-level scHi-C data, I'd be very interested to hear how the integration results look.