What are the best intron splice finder tools?
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11 months ago
DNAlias ▴ 30

What are your go-to tools for predicting intron splice sites? Here are the ones I'm familiar with:

BCM Search Launcher http://arete.ibb.waw.pl/PL/html/gene_feature_searches_bcm.html

GeneMark-EP+ http://exon.gatech.edu/GeneMark/gmep_plus_instructions.html

GENESCAN http://hollywood.mit.edu/GENSCAN.html

Splice http://www.fruitfly.org/seq_tools/splice.html

intron gene prediction eukaryotes annotation • 449 views
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  • SpliceMachine
  • GeneSplicer
  • simple WAM approach
  • NetGene(2)
  • SpliceFinder

most of these should you should be able to optimise/train for new species

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