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-   -   Best tool to look for alterntive splicing (http://seqanswers.com/forums/showthread.php?t=71843)

SylvainL 10-05-2016 01:32 AM

Best tool to look for alterntive splicing
 
Dear all,

I would like to know which tools you use when you want to look for alternative splicing events.
Some goodies I am particularly looking for:
- works with either single or paired-end data
- possibility to discover new junctions (not only reference-based)
- possibility to quantify the events with pairing between samples (not only by group but also by treatments, sequencing dates, etc...)

I saw few but none has all of this (particularly the pairing analysis), so I am asking the community :)

Thanks in advance

Sylvain


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