What’s the answer? (splice site prediction)

BioStar is a site for asking, answering and discussing bioinformatics questions. We are members of thecommunity and find it very useful. Often questions and answers arise at BioStar that are germane to our readers (end users of genomics resources). Every Thursday we will be highlighting one of those questions and answers here in this thread. You can ask questions in this thread, or you can always join in at BioStar.

This week’s highlighted question is about splicing. One of my first projects in bioinformatics was looking at splicing, but I haven’t looked specifically into the tools associated with splice site predictions at all lately. So I was interested in the answer to the question as well.

Question: Favorite splice site prediction/evaluation tools

Does anyone have a favorite splice site prediction / evaluation tool? (This would be for evaluating variants in the human genome). I am familiar with the Human Splicing Finder, but am looking to try others. Open-source would be ideal, and if possible something that can be scripted into a workflow. Thanks.

Alex Paciorkowski

Go and have a look at the ones that were offered. And if you have others that you know about, please add them to the discussion.