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cheddar (version 0.1-638)

Analysis and Visualisation of Ecological Communities

Description

Provides a flexible, extendable representation of an ecological community and a range of functions for analysis and visualisation, focusing on food web, body mass and numerical abundance data. Allows inter-web comparisons such as examining changes in community structure over environmental, temporal or spatial gradients.

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Version

Install

install.packages('cheddar')

Monthly Downloads

443

Version

0.1-638

License

BSD_2_clause + file LICENSE

Issues

Pull Requests

Stars

Forks

Maintainer

Lawrence Hudson

Last Published

September 1st, 2022

Functions in cheddar (0.1-638)

Benguela

Benguela
ApplyByClass

Apply by class
AggregateCommunities

Aggregate communities
CollectionApply

Collection apply
CommunityCollection

Collections of communities
DegreeDistribution

Node degree distribution
IsCannibal

Cannibalistic nodes
CommunityPropertyNames

Names of community properties
CollectionNPS

Collection node properties
Degree

Node degree
Intervality

Food web Intervality
Community has property?

Community has property?
CollectionTLPS

Collection trophic-link properties
Community

Community
LumpTrophicSpecies

Lump trophic species
Node connectivity

Node connectivity
NP

Single node properties
Body mass, numerical abundance and biomass abundance

Body mass, numerical abundance and biomass abundance
NPS

Node properties
LoadCommunity

Loading and saving Community objects
LumpNodes

Lump nodes
NvMConvexHull

NvMConvexHull
NumberOfNodes

Number of nodes
NumberOfTrophicLinks

Number of trophic links
Omnivory

Omnivory
NvMLinearRegressions

NvMLinearRegressions
NodeNameIndices

Node name indices
LoadCollection

Loading and saving CommunityCollection objects
OrderCollection

Order a collection of communities
Millstream

Millstream
LinearRegressionByClass

Linear regression by class
NvMTriTrophicStatistics

N-versus-M tri-trophic statistics
NvMTriTrophicTable

N-versus-M tri-trophic statistics
NodePropertyNames

A vector of names of node properties
PlotNPS

Plot node properties
Spectrum plots

Spectrum plots
OrderCommunity

Order a community
Pyramid plots

Pyramid plots
PlotAuppervAlower

Plot upper-versus-lower link angles
PlotRankNPS

Plot rank of node properties
PlotCircularWeb

Plot circular web
PlotHelpers

Plot helpers
ResourceLargerThanConsumer

Resource larger than consumer
PlotWagonWheel

Plot wagon wheel
PredationMatrix

Predation matrix
PlotWebByLevel

Plot web by level
ResourcesByNode

Resources and consumers of nodes
PredationMatrixToLinks

Predation matrix to trophic links
PlotTLPS

Plot trophic-link properties
QuantitativeDescriptors

Quantitative descriptors
PlotNPSDistribution

Plot distributions of node properties
RemoveCannibalisticLinks

Remove cannibalistic trophic links
TLPS

Trophic-link properties
SkipwithPond

SkipwithPond
TLP

A single trophic-link property
TL84

Tuesday Lake datasets
ShortestPaths

Path lengths
ThreeNodeChains

Three-node chains
TrophicChains

Trophic chains
RemoveIsolatedNodes

Remove isolated nodes
SiteBySpeciesMatrix

Community collection site by species matrix
subset.CommunityCollection

A subset of a collection of communities
RemoveNodes

Remove nodes
TrophicSpecies

Trophic species
YthanEstuary

Ythan Estuary
TrophicLevels

Trophic levels
TrophicChainsStats

Trophic chains statistics
TrophicLinkPropertyNames

Trophic link property names
TrophicSimilarity

Trophic similarity
pHWebs

pHWebs
cheddar

Analysis and visualisation of ecological communities
BodyMassBins

Body-mass bins
CPS

Community properties
ChesapeakeBay

ChesapeakeBay
CollectionCPS

Collection community properties
CP

Single community properties
BroadstoneStream

Broadstone Stream