Not working when chromosome is not starting with "chr"

[PFRoux]

Hi !

Thanks for this very nice tool.

It's not really a bug but a suggestion for improving the tool.
So far, it is not working when the chromosome name in the .bam or the .bed is not starting with "chr".

++

Pef

[jaudall]

What!? You've got to be kidding. Is this still an issue?

As good as this software seems to be (or as widely used), I'm very surprised by the hardcoded name format ... NCBI genome entries are not required to have names beginning with 'chr'. This seems like a bad idea.

[PFRoux]

I don’t recall since I haven’t used SICER for a while so this might have been fixed in the meantime ?
But if I opened this issue I am pretty sure this was a problem :-)

i should have put a reproducible example though …