search

VCCRI / CIDR

Clustering through Imputation and Dimensionality Reduction
GNU General Public License v2.0
62 stars 22 forks source link

trying CIDR on ChIP-seq style vectors #4

Open avilella opened 7 years ago

avilella commented 7 years ago

Hi,

Has anyone tried CIDR to cluster ChIP-seq data? Any recommendations on where to start with?

hojwk commented 7 years ago

We have not. CIDR is specifically designed to deal with dropouts in single-cell RNA-seq data. In particular, CIDR assumes a dropout event is more likely to occur when a gene has low expression. I am not sure if this assumption is valid for general ChIP-seq data analysis.