How to analyse the BAM files produced by EricScript?

Question

[w.t.k.maassen]

Hello everybody,

I have a question about EricScript. EricScript is software package used for detection of fusion genes in paired end RNA seq data. However, next to the fusion genes you get as an output, I would also like to analyse the different bam-files to see the reads myself. IGV does not work, because the bam files are not formatted in the right way to open them with IGV.

Does anybody have suggestions how I can analyse these files?

Best regards,

Kars

[GenoMax]

Are they not formatted the right way or do you just need to sort/index them?

[w.t.k.maassen]

I think they are not formatted the right way. Because I already tried sorting and indexing them.

[John]

Theres a mailing list for EricScript by the way: https://groups.google.com/forum/#!forum/ericscript