how to do the statistical analysis with beds files generated from different samples?
Hello everyone, i have six bed files (3 samples, 2 replicates) generated from segemehl software, each file contains the splice site (back-splice site), the gene ID, the read ID, the RPM value (i calculated and added this column) ,and other information, now i want to analysis the expression differences (RPM value) of each back-splice site among samples, is there any software or tools can do this? or any idea? thanks a lot . PS: i have the corresponding BAM files too.
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