Measuring functional diversity (FD) from multiple traits, and other tools for functional ecology

FD is a package to compute different multidimensional FD indices. It implements a distance-based framework to measure FD that allows any number and type of functional traits, and can also consider species relative abundances. It also contains other useful tools for functional ecology.


News

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FD RELEASE VERSIONS

CHANGES in FD 1.0-12 - added mahaldis function (author: Pierre Legendre) - changed maxent and maxent.test (Bill Shipley)

  • corrected calculation of nb.sp (thanks to Phil Novack-Gottshall)

CHANGES IN FD 1.0-11

    - corrected NAMESPACE file

CHANGES IN FD 1.0-10

    - added option ord = "classic" in gowdis to reproduce behaviour of daisy in {cluster}
    - added message about dbFD sometimes crashing due to calc.FRic = "TRUE", and proposed 'solutions'.
- corrected minor bug in dbFD to detect if one species had no trait data
- changed stand.FRic to FALSE in dbFD by default

CHANGES IN FD 1.0-9

- fixed bug to compute sing.sp in dbFD(). Thanks to Sarah Berke for reporting.
    - added message to mention maxentMC is available as a faster alternative for multicore processors (Linux or Mac only)

CHANGES IN FD 1.0-8

- changed behaviour of quick = T in maxent.test. Now also can stop earlier when H0 is true.
    - corrected last example in maxent.test (typo)

CHANGES IN FD 1.0-7

- added maxent.test, following Shipley (2010)
    - changed tol to 1e-7 in maxent
    - modified arguments of maxent
    - maxent can now be run on multiple sites

CHANGES IN FD 1.0-6

- added compiled FORTRAN code for loop in maxent(). About 10x boost in speed.

CHANGES IN FD 1.0-5

- corrector minor error in functcomp()

CHANGES IN FD 1.0-4

- added bin.num to functcomp() to allow default behaviour to be over-ridden

CHANGES IN FD 1.0-3

    - added maxent, added Bill Shipley as co-author of FD

CHANGES IN FD 1.0-2

    - added useDynLib(FD) in NAMESPACE and deleted zzz.r

CHANGES IN FD 1.0-1

    - CITATION: corrected file
    - gowdis: added compiled C code to considerably improve performance
    - dbFD: no more error message when calc.FRic = F and calc.FDiv = T

Reference manual

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install.packages("FD")

1.0-12 by Etienne Laliberté, 5 years ago


Browse source code at https://github.com/cran/FD


Authors: Etienne Laliberté , Pierre Legendre , Bill Shipley


Documentation:   PDF Manual  


Task views: Analysis of Ecological and Environmental Data


GPL-2 license


Depends on ade4, ape, geometry, vegan


Imported by CluMix, ClusterR, RAM, STEPCAM, SYNCSA, Select, ecospace, hillR, pez.

Depended on by geosptdb, idar.

Suggested by EcoIndR.


See at CRAN