how to deal with many bam files

[Aline-Git]

Hello,

Thanks for this very useful tool !

I should I proceed if I have many (e.g. 308) bam files ? It will be complicated to put them all in a command line. Should I merge them first ?

Aline

[cjw85]

Running a samtools merge will be notionally equivalent to providing modbam2bed all of the files at once. Take your pick! 😄

[Aline-Git]

Thanks, it should be fast to choose :)