SICER is currently restricted to 'mm8', 'mm9', 'hg18', 'hg19', 'dm2', 'dm3',
'sacCer1', 'pombe', 'rn4', 'tair8' dbkeys. The issue here is that SICER itself
has the needed chromosome length information hard coded. I wrote to the authors
last year suggesting a simple way to avoid having to modify the SICER code to
add additional genome information, and while the response was positive, I do
not know if it will be acted upon.
The modifications needed to be made to the SICER code are relatively
straightforward, so you can run your own instance and make them if you wish,
but we try to avoid running modified code on our public servers.
Thanks for using Galaxy,
On Feb 29, 2012, at 3:40 AM, Vidya .H.K wrote:
> I am trying to run SICER-peak calling tool in galaxy. I am not able run
> the analysis, as an error message " SICER is not available for the genome"
> is frequently flagged.
> Can any one suggest me a soultion for the same.
> Please keep all replies on the list by using "reply all"
> in your mail client. To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at: