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Old 02-03-2010, 09:20 AM   #1
Xi Wang
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Location: MDC, Berlin, Germany

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Default ERANGE 3.1 RNAseq analysis

hello guys,

I just noticed that ERANGE is a very powerful tool for analyzing RNA-seq data. It computes RPKMs for genes from unique, multiple and splice reads, and it also can identify cluseters of reads not belonging to any gene model. However, I still wondering whether it can identify novel (beyond the gene/exon annotation) splice junctions.

Any comment is appreciated!
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Old 02-03-2010, 09:33 AM   #2
shurjo
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No, it can not.
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Old 02-03-2010, 07:03 PM   #3
Xi Wang
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Thanks, shurjo.

Is it possible to add this function to ERANGE? I think it's not very difficult. For example, take the output of Tophat as its input.
On the other hand, ERANGE stops its update since April 2009. Maybe, it will not release any new version thereafter...
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