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Old 01-18-2013, 07:01 AM   #1
shamstabrez
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Location: new delhi, india

Join Date: Jan 2013
Posts: 1
Default tools for differential alternative splicing

hi all,
I am a new member of this community, till now i read various threads which i found really helpful for my work. i have various queries, but i will try to discuss them step by step.
I am not that sound in bioinformatics, but i am trying to get a better understanding of it.
i am using illumina genome analyser, and i am interested in RNA seq analysis.
i had used clc genomics, avadis ngs(trial version) and now working with cufflink pipeline(along with cuffdiff).
clc genomics is very easy to understand and is helpful in various downstream RNA seq analysis, but it has no options of differential alternative splicing.
i am interested in differential alternative splicing pattern in wild type and mutant condition, can anyone please suggest me software for the same.(i don't have replicates as is required by various softwares, so please suggest keeping the same in mind)

thanking you in anticipation.
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