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brinkmanlab / islandpath

IslandPath standalone software
GNU General Public License v3.0
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Problems on obtianing details of genomic islands #18

Open aslangabriel opened 2 years ago

aslangabriel commented 2 years ago

I have tested IslandPath-DIMOB to search genomic islands associated with E.coli virulence genes and get the final results with start and end position of each GI. I just wonder how could I get the details of each GI such as name and other related inofrmation in batch with efficiency. Are there any tools available for local run

innovate-invent commented 2 years ago

Hi and thank you for your interest in IslandPath.

IslandPath predicts genomic islands based on sequence composition and does not provide any curated annotation information.

You could potentially extract the island sequence and BLAST search NCBIs database for a similar annotated region.

Please see our publication for the specifics of IslandPath.