SaaienTist - Latest Comments in First test release of circular genome browser

Re: First test release of circular genome browser

jandot — Sun, 19 Jul 2009 08:44:09 -0000

Brentongraveley,

The genome size is also hard-coded into pARP at the moment. I'll change that so that it can work with non-human genomes.

jan.

UPDATE: The code has now been changed so that it should work for other species as well.

Re: First test release of circular genome browser

jandot — Sat, 18 Jul 2009 09:56:08 -0000

Thanks brentongraveley,

As this is still nothing more than alpha some things are still baked-in. The chromosome names and lengths as well as the position of the centromeres is in a file called meta_data.tsv. Try to change that for the Drosophila case. It might work (and yet again: it might not (yet)).

Good luck,
jan.

Re: First test release of circular genome browser

brentongraveley — Fri, 17 Jul 2009 16:26:57 -0000

Hi,

This is a great browser with lots of potential. I'm working on getting this set up for analyzing Drosophila data. The install with the test data worked fine, however, when I substitute this for corresponding Drosophila data, the program won't work. One thing I'm wondering about is chromosome nomenclature. Drosophila chromosomes are called chr2L, chr3R, etc. not just numbers. Will this cause it to not work?

Thanks,