Package: SYNCSA 1.3.5

SYNCSA: Analysis of Functional and Phylogenetic Patterns in Metacommunities

Analysis of metacommunities based on functional traits and phylogeny of the community components. The functions that are offered here implement for the R environment methods that have been available in the SYNCSA application written in C++ (by Valerio Pillar, available at <http://ecoqua.ecologia.ufrgs.br/SYNCSA.html>).

Authors:Vanderlei Julio Debastiani

SYNCSA_1.3.5.tar.gz
SYNCSA_1.3.5.zip(r-4.5)SYNCSA_1.3.5.zip(r-4.4)SYNCSA_1.3.5.zip(r-4.3)
SYNCSA_1.3.5.tgz(r-4.5-any)SYNCSA_1.3.5.tgz(r-4.4-any)SYNCSA_1.3.5.tgz(r-4.3-any)
SYNCSA_1.3.5.tar.gz(r-4.5-noble)SYNCSA_1.3.5.tar.gz(r-4.4-noble)
SYNCSA_1.3.5.tgz(r-4.4-emscripten)SYNCSA_1.3.5.tgz(r-4.3-emscripten)
SYNCSA.pdf |SYNCSA.html
SYNCSA/json (API)

# Install 'SYNCSA' in R:
install.packages('SYNCSA', repos = c('https://vanderleidebastiani.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/vanderleidebastiani/syncsa/issues

Datasets:
  • ADRS - Artificial Data for Run SYNCSA
  • flona - Hypothetical data for SYNCSA

On CRAN:

Conda:

5.36 score 3 stars 1 packages 28 scripts 380 downloads 9 mentions 36 exports 22 dependencies

Last updated 5 years agofrom:83622ced40. Checks:6 OK, 3 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 05 2025
R-4.5-winNOTEMar 05 2025
R-4.5-macNOTEMar 05 2025
R-4.5-linuxNOTEMar 05 2025
R-4.4-winOKMar 05 2025
R-4.4-macOKMar 05 2025
R-4.4-linuxOKMar 05 2025
R-4.3-winOKMar 05 2025
R-4.3-macOKMar 05 2025

Exports:belongingcent.normcoinertia.partial.syncsacoinertia.syncsaCollectNamescor.matrixcor.matrix.bfcor.matrix.partialcor.matrix.raomatmult.syncsamatrix.pmatrix.tmatrix.w.transformationmatrix.xoptimalorganize.syncsapart.corpcapermut.row.matrixpermut.vectorpro.matrixpro.matrix.bfpro.matrix.partialpro.matrix.raoprocrustes.partial.syncsaprocrustes.syncsaProgressBARrao.diversityrv.matrixrv.matrix.bfrv.matrix.partialrv.matrix.raosyncsasyncsa.obsvar.dummyvar.type

Dependencies:abindade4apeclusterdigestFDgeometrylatticelinproglpSolvemagicMASSMatrixmgcvnlmepermutepixmapRcppRcppArmadilloRcppProgressspvegan

Readme and manuals

Help Manual

Help pageTopics
Artificial Data for Run SYNCSAADRS
Degree of belonging of speciesbelonging
Matrix centralization and standardizationcent.norm
Co-inertia and Partial Co-inertia correlations.coinertia.partial.syncsa coinertia.syncsa
Collect names an entire listCollectNames
Function to obtain the correlation between two matrices and partial matrix correlation between three matrices.cor.matrix cor.matrix.bf cor.matrix.partial cor.matrix.rao pro.matrix pro.matrix.bf pro.matrix.partial pro.matrix.rao rv.matrix rv.matrix.bf rv.matrix.partial rv.matrix.rao
Hypothetical data for SYNCSAflona
Matrix multiplication with missing datamatmult.syncsa
Matrix Pmatrix.p
Matrix Tmatrix.t
Community data transformationmatrix.w.transformation
Matrix Xmatrix.x
Searching for optimal traitsoptimal print.optimal
Function for organize data for Package SYNCSAorganize.syncsa
First-order partial correlation coefficientpart.cor
Principal Components Analysis (PCA) with NA (missing data)pca plot.pcasyncsa print.pcasyncsa
Permutate rows in a matrixpermut.row.matrix
Permutate a vectorpermut.vector
Procrustes and Partial Procrustes correlations.procrustes.partial.syncsa procrustes.syncsa
Text Progress BarProgressBAR
Rao's quadratic entropyrao.diversity
SYNCSAprint.syncsa SYNCSA syncsa syncsa.obs
Generate dummy variablevar.dummy
Check the type of variablesvar.type