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cheddar (version 0.1-639)

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

661

Version

0.1-639

License

BSD_2_clause + file LICENSE

Issues

Pull Requests

Stars

Forks

Maintainer

Lawrence Hudson

Last Published

July 24th, 2024

Functions in cheddar (0.1-639)

ChesapeakeBay

ChesapeakeBay
CollectionNPS

Collection node properties
Degree

Node degree
LumpTrophicSpecies

Lump trophic species
Millstream

Millstream
CollectionTLPS

Collection trophic-link properties
CommunityCollection

Collections of communities
Community

Community
LinearRegressionByClass

Linear regression by class
IsCannibal

Cannibalistic nodes
DegreeDistribution

Node degree distribution
Intervality

Food web Intervality
NP

Single node properties
CommunityPropertyNames

Names of community properties
Community has property?

Community has property?
NPS

Node properties
LoadCollection

Loading and saving CommunityCollection objects
LoadCommunity

Loading and saving Community objects
Omnivory

Omnivory
Node connectivity

Node connectivity
OrderCollection

Order a collection of communities
LumpNodes

Lump nodes
NvMConvexHull

NvMConvexHull
NodeNameIndices

Node name indices
NvMLinearRegressions

NvMLinearRegressions
PlotHelpers

Plot helpers
Pyramid plots

Pyramid plots
PlotCircularWeb

Plot circular web
NvMTriTrophicStatistics

N-versus-M tri-trophic statistics
PlotRankNPS

Plot rank of node properties
NumberOfNodes

Number of nodes
ResourceLargerThanConsumer

Resource larger than consumer
ResourcesByNode

Resources and consumers of nodes
Body mass, numerical abundance and biomass abundance

Body mass, numerical abundance and biomass abundance
PlotAuppervAlower

Plot upper-versus-lower link angles
TLP

A single trophic-link property
NodePropertyNames

A vector of names of node properties
PlotWagonWheel

Plot wagon wheel
OrderCommunity

Order a community
PlotWebByLevel

Plot web by level
NvMTriTrophicTable

N-versus-M tri-trophic statistics
SkipwithPond

SkipwithPond
PlotNPS

Plot node properties
PlotNPSDistribution

Plot distributions of node properties
QuantitativeDescriptors

Quantitative descriptors
PredationMatrix

Predation matrix
RemoveCannibalisticLinks

Remove cannibalistic trophic links
TLPS

Trophic-link properties
PredationMatrixToLinks

Predation matrix to trophic links
TL84

Tuesday Lake datasets
ShortestPaths

Path lengths
SiteBySpeciesMatrix

Community collection site by species matrix
ThreeNodeChains

Three-node chains
TrophicLinkPropertyNames

Trophic link property names
NumberOfTrophicLinks

Number of trophic links
TrophicSpecies

Trophic species
TrophicChains

Trophic chains
YthanEstuary

Ythan Estuary
cheddar

Analysis and visualisation of ecological communities
TrophicSimilarity

Trophic similarity
pHWebs

pHWebs
PlotTLPS

Plot trophic-link properties
Spectrum plots

Spectrum plots
RemoveIsolatedNodes

Remove isolated nodes
RemoveNodes

Remove nodes
TrophicChainsStats

Trophic chains statistics
TrophicLevels

Trophic levels
subset.CommunityCollection

A subset of a collection of communities
Benguela

Benguela
CPS

Community properties
AggregateCommunities

Aggregate communities
CollectionCPS

Collection community properties
CollectionApply

Collection apply
BodyMassBins

Body-mass bins
ApplyByClass

Apply by class
BroadstoneStream

Broadstone Stream
CP

Single community properties