GenGIS
{{lead rewrite|date=February 2015}}
{{Infobox software
| name = GenGIS
| screenshot = 200px
| caption = Biodiversity of 19 marine metagenomes from the Global Ocean Sampling Expedition.
| developer = Donovan Parks, Mike Porter, Timothy Mankowski, Suwen Wang, Sylvia Churcher, Alex Keddy, Christian Blouin, Jacqueline Whalley, Stephen Brooks, Rob Beiko
| latest release version = 2.5.3
| latest release date = {{Start date and age|2017|04|22|df=yes}}
| operating system = Windows, Mac OS X
| genre = Bioinformatics
| license = GPL v3
| website = {{URL|http://kiwi.cs.dal.ca/GenGIS/Main_Page}}
}}
GenGIS{{cite journal |last=Parks |first=DH |author2=Porter M |author3=Churcher S |author4=Wang S |author5=Blouin C |author6=Whalley J |author7=Brooks S |author8=Beiko RG |year=2009 |title= GenGIS: A geospatial information system for genomic data |journal= Genome Research |volume= 19|issue= 10|pages=1896–1904 |doi=10.1101/gr.095612.109 |pmid=19635847 |pmc=2765287}} merges geographic, ecological and phylogenetic biodiversity data in a single interactive visualization and analysis environment. A key feature of GenGIS is the testing of geographic axes that can correspond to routes of migration or gradients that influence community similarity.{{cite book |last=Parks |first=DH |author2=Beiko RG |title=2009 17th International Conference on Geoinformatics |chapter=Quantitative visualizations of hierarchically organized data in a geographic context |year=2009 |pages=1–6 |doi=10.1109/GEOINFORMATICS.2009.5293552 |isbn=978-1-4244-4562-2 |s2cid=22986133 }} Data can also be explored using graphical summaries of data on a site-by-site basis, as 3D geophylogenies, or custom visualizations developed using a plugin framework. Standard statistical test such as linear regression and Mantel are provided, and the R statistical language can be accessed directly within GenGIS. Since its release, GenGIS has been used to investigate the phylogeography of viruses and bacteriophages, bacteria, and eukaryotes.
See also
References
External links
- [http://kiwi.cs.dal.ca/GenGIS GenGIS homepage]