Firstwrkshnotes » History » Revision 7
Revision 6 (Corinna Gries, 03/10/2014 01:57 PM) → Revision 7/20 (Corinna Gries, 03/10/2014 02:00 PM)
h1. Workshop Notes are on etherpad: https://epad.nceas.ucsb.edu/p/commdyn-20140105 h1. Metrics h1.Metrics brainstorming: * what are you currently using * what would you like to use * how widely is it used * can it be applied to different biological community datasets (sampling approach) * is it already coded {in R} h2. Metrics # *Diversity* (all of these are generally in R, mostly in vegan) ## Jaccard index ## Simpson's diversity ## Shannons index ## Turnover - different ways to calculate ## Dominance ## Evenness ## Richness ## Rank abundance shift ## Beta diversity # *Community metrics/ordination* ## NMDS (vegan) ## PCA (vegan) ## Bray curtis (vegan) ## Variance tracking, quantify variability change # *Spatial* ## patch scale ## spatial autoregression ## meta community statistics # *Mechanistic models* ## MAR, needs driver matrix, problem auto-corelation, mostly fresh water or marine (Eli Holmes has state-space MAR in R implemented, not sure if it's on CRAN) http://cran.r-project.org/web/packages/MARSS/index.html ## MANOVA (vegan? Also, permanova is in vegan) ## interaction population models - inter specific competition (Ben Bolker's book and corresponding package) # *Food webs* ## connectance ## network analysis # *Traits/phylogentic* ## species aggregation (functional groups, trophic levels ## phylogenetic dispersion (ape etc. -- this stuff is all in R) ## Native/exotic # *Temporal indices* ## Variance ratio ## Mean-variance scaling ## Spectral analysis ## Regresssion windows (strucchange) # *null models* h2. Issues: h2.Issues: #length of time series relative to lifespan of organisms WMI toolbox #high frequency data needed sample too frequently then don't see signal, sample to far about miss all dynamics #type of variable being measured abundance, biomass, production Rare species as background noise rank abundance curves back again Comparative analysis of small noise vs large noise systems. What drives differences?