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CraigIDent / SpliSER

Bioinformatic tool for Splice site Strength Estimation using RNA-seq
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Duplicates Site #4

Open algaebrown opened 6 months ago

algaebrown commented 6 months ago

Hi @CraigIDent, Thanks for making such a wonderful tool.

I ran it on some stranded RNA-seq data and found duplicated acceptor SSE values: image

Please advise why there would be duplicated values for a single position on the same gene? Thanks

I ran SpliSER_v0_1_8.py. Thanks

CraigIDent commented 2 months ago

Hi @algaebrown! Sorry I missed this one. Short answer is - it shouldn't be doing that. I guess you might have moved on from this analysis, but if you could send me an extract of the BAM and BED file that you were using for this region, it would help me figure out what has gone wrong. It looks like SpliSER has taken one (very rare) junction and not recognised that it uses the same 5' site as the junctions above. I haven't seen this issue before. Best, Craig