problem in using ERANGE

saha

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Join Date: Jan 2010

Posts: 5
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problem in using ERANGE

03-03-2010, 11:31 PM

hello everyone,

I am working on SOLiD platform and want to use SOLiD data for RNAseq analysis. For that i am trying to utilize bowtie for mapping an ERANGE for RPKM. For bowtie mapping we need expanded genome. i am trying to utilize getsplicefa.py of ERANGE to get splice file. but while doing this is am getting the following error:

psyco not running
/share/apps/ERANGE/project/genome/commoncode/getsplicefa.py: version 3.2
43180
369006
could not get chr3:72692980-72695247
could not get chr3:72695415-72695619
could not get chr3:72695669-72704339
could not get chr3:72704428-72707527
could not get chr3:72707652-72708182
could not get chr3:72708239-72708321
could not get chr3:72708406-72711003
could not get chr3:72711152-72712888
could not get chr3:72713005-72713089
contt...

Any help is appreciable

Saha
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