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Open tools and standard for species interactions
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Timothée Poisot
February 26, 2018
Science
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Open tools and standard for species interactions
Talk for the 4th GLOBIS-B workshop, Bari, Italia, Feb. 2018
Timothée Poisot
February 26, 2018
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Transcript
cb Tools for species interactions Open data, tools, and standards
Timothée Poisot Université de Montréal February 26, 2018
But first... let’s talk about networks.
SPECIES INTERACTIONS VARY · β diversity of networks · Need
to identify common species across networks Poisot et al. 2012 – Ecology Letters
SPECIES INTERACTIONS EVOLUTIONARY SIGNAL IS CONSERVED ACROSS SCALES · Co-phylogenetic
signal in networks and in interactions · Need to link networks to phylogenies Poisot & Stouffer 2017 – Oikos
SPECIES AND INTERACTIONS DISTRIBUTE DIFFERENTLY · Impact of bioclimatic variables
on species/interactions · Need to extract metadata from networks Poisot et al. 2017 – Global Ecology & Biogeography
SPECIES INTERACTION NETWORKS HAVE A BIOGEOGRAPHIC SIGNAL · Global distribution
of network properties · Need to do all of the above Poisot et al. 2015 – Ecography
SPECIES INTERACTION NETWORKS HAVE A BIOGEOGRAPHIC SIGNAL · Global prediction
of network properties · Need to do all of the above Gravel et al. 2016 – biorXiV
SPECIES INTERACTIONS NEED TRAITS TO BE PREDICTED · Predictive success
with and without traits · Need to data on functional traits Desjardins-Proulx et al. 2017 – PeerJ
WWJHPS (WHAT WHOULD JULES HENRI POINCARÉ SAY)? The scientist must
seek order. We build science with facts as we build houses with stones. But an accumulation of facts is no more a science than a heap of stones is a house.
BEYOND THE ACCUMULATION OF FACTS · Link network nodes to
taxonomic backbones · Granular metadata (where, when, who, what) · Hierarchy of objects · Ability to join with external databases
DESIGN THE API FIRST · more data = less incentive
to look at them · easier to link to other projects
CURRENT DATA FORMAT Poisot et al. 2013 – Ecography
MANGAL.IO
WEB OF LIFE
GLOBI
INTERACTION WEB DATABASE
COMPARISON Database Networks Interactions Metadata API mangal yes yes yes
yes GLOBI no1 yes yes yes web of life yes no no 2 no IWDB yes no no no 1for some definitions of network… 2present, but not accessible programmatically
SO WHAT? · diversity is good (userbases, edge cases, …)
· agree on a Minimum Data Specification for Ecological Interactions · use it to facilitate the mining of multiple databases
None