Coverage display?

[ewilbanks]

Hi all,

I'm trying to display genomic coverage for an Illumina run (aligned to genome w ELAND, eland_multi output files). My organism, Haloferax volcanii is up on the UCSC archaeal genome browser so I was considering trying to display the read pile up there. Does anyone have useful scripts for going from eland_multi files to gff or wiggle?

Any thoughts on nicer ways to display coverage? I'd love to have just a line graph of coverage depth throughout the genome, and the ability to show + and - strands. Again, I was thinking of using R but I'm not too familiar with it so the learning curve here seems a bit steep!

Thanks!!!!!

Lizzy