So half, if not more, of my life is dedicated to using (and breaking) bioinformatic software, so of course, when I heard there was a whole poster talk session on new bioinformatic tools I grabbed my computer staked out a sweet spot where I could charge everything up and waited for the black-box buttons to be pushed...
Before I jump in...a shout out to my lovely fellow bioinformatician who I haven't seen in 4 years (we met at the Workshop for Genomics in 2014) yet prolifically follow on twitter and instagram. We found eat other at Daniel McDonald's poster presentation for the American Gut Project...awww Dr. McDonald bringing together globally floating around bioinformaticians since 2018.
Alright - back to the session: First up -
So, the first thing I typically do when someone touts a new piece of software is google/google scholar it. I want to find the software page...github, sourceforge, lab webpage - I like going to the source, looking at documentation and making my own assessments. Alas for Gi-Scanner it is not published or available on a website yet. I was a bit confused in the presentation as to whether we were looking at a piece of software to identify genomic islands OR if we are waiting on a database of genomic islands for V. cholerae identified by their software but that their software may not actually be available for public use. I want to think the former - that the software will be readily available soon and that the database will also be published/available for those interested in particular with V. cholerae.
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| Dr. Sophie Shaw (right) and I |
Alright - back to the session: First up -
YoungJae Hur, Seoul National University:
Gi-Scanner: An algorithm to predict genomic islands by
comparative genomics
So, the first thing I typically do when someone touts a new piece of software is google/google scholar it. I want to find the software page...github, sourceforge, lab webpage - I like going to the source, looking at documentation and making my own assessments. Alas for Gi-Scanner it is not published or available on a website yet. I was a bit confused in the presentation as to whether we were looking at a piece of software to identify genomic islands OR if we are waiting on a database of genomic islands for V. cholerae identified by their software but that their software may not actually be available for public use. I want to think the former - that the software will be readily available soon and that the database will also be published/available for those interested in particular with V. cholerae.
