hello, I would like to know if it is possible to check if in a rna-seq there are alternative splicing events, not comparing two condition but inside one condition only, that is if different transcript isoforms are produced in the same sample, thank you
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Cufflinks will compute the expression levels of individual isoforms.
Or, you can just examine the alignment files for individual genes in IGV (or the UCSC Genome Browser).
Obviously, it is not always possible to determine accurately to which transcript a read belongs, so the results are sometimes ambiguous.
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cDNA tagging for isoform detection
Originally posted by blancha View PostCufflinks will compute the expression levels of individual isoforms.
Or, you can just examine the alignment files for individual genes in IGV (or the UCSC Genome Browser).
Obviously, it is not always possible to determine accurately to which transcript a read belongs, so the results are sometimes ambiguous.
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