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Consistent peaks from Histone Chip datasets
Hi,
I have 3 histone-marks Chip-Seq data (H3K27AC,H3K4me3,H3K27me3). Each condition has two biological replicates and 2 controls. I used SICER to call the peaks, and results looks promising .
If there are two biological replicates, how to obtain the consistent islands (signals present in two replicates) . For TF chip , I tried IDR approach https://sites.google.com/site/anshul...e/projects/idr to obtain the peaks that are consistent in replicate data.
IDR approach described in above link is for TF chip, can I use the same approach for Histone Chip data?? or is there any other approach that people usually follows, when analyzing Histone Chip with replicate data?
Any suggestions??
I have 3 histone-marks Chip-Seq data (H3K27AC,H3K4me3,H3K27me3). Each condition has two biological replicates and 2 controls. I used SICER to call the peaks, and results looks promising .
If there are two biological replicates, how to obtain the consistent islands (signals present in two replicates) . For TF chip , I tried IDR approach https://sites.google.com/site/anshul...e/projects/idr to obtain the peaks that are consistent in replicate data.
IDR approach described in above link is for TF chip, can I use the same approach for Histone Chip data?? or is there any other approach that people usually follows, when analyzing Histone Chip with replicate data?
Any suggestions??