Referenced by ⇅
Year
bcp : Bayesian Analysis of Change Point Problems (Version 4.0.3)
2006
biogeo : Point Data Quality Assessment and Coordinate Conversion (Version 1.0)
2016
biosurvey : Tools for Biological Survey Planning (Version 0.1.1)
2021
dave : Functions for "Data Analysis in Vegetation Ecology" (Version 2.0)
2013
DiversityOccupancy : Building Diversity Models from Multiple Species Occupancy Models (Version 1.0.6)
2016
fieldRS : Remote Sensing Field Work Tools (Version 0.2.3)
2018
HierDpart : Partitioning Hierarchical Diversity and Differentiation Across
Metrics and Scales, from Genes to Ecosystems (Version 1.5.0)
2018
liayson : Linking Singe-Cell Transcriptomes Atween Contemporary
Subpopulation Genomes (Version 1.0.5)
2018
MapeBay : Multivariate Analysis of Variance Panel, PERMANOVA and Bayesian (Version 0.1.0)
2021
MEDITS : Analysis of MEDITS-Like Survey Data (Version 0.1.7)
2019
propr : Calculating Proportionality Between Vectors of Compositional
Data (Version 4.2.6)
2016
Rarefy : Rarefaction Methods (Version 1.1.1)
2020
rich : Computes and Compares Species Richnesses (Version 1.0.1)
2011
DivInsight : Diversity Index Calculation & Visualisation for Taxa and
Location (Version 0.1.0)
2023
loe : Local Ordinal Embedding (Version 1.1)
2014
metacoder : Tools for Parsing, Manipulating, and Graphing Taxonomic Abundance Data (Version 0.3.7)
2016
taxize : Taxonomic Information from Around the Web (Version 0.9.100.1)
2012
MetaNet : Network Analysis for Omics Data (Version 0.1.2)
2024
MiRKAT : Microbiome Regression-Based Kernel Association Tests (Version 1.2.3)
2018
MiSPU : Microbiome Based Sum of Powered Score (MiSPU) Tests (Version 1.0)
2016
edmcr : Euclidean Distance Matrix Completion Tools (Version 0.2.0)
2017
enmpa : Ecological Niche Modeling using Presence-Absence Data (Version 0.1.8)
2023
entropart : Entropy Partitioning to Measure Diversity (Version 1.6-15)
2013
enveomics.R : Various Utilities for Microbial Genomics and Metagenomics (Version 1.9.1)
2016
epiphy : Analysis of Plant Disease Epidemics (Version 0.5.0)
2018
AICcPermanova : Model Selection of PERMANOVA Models Using AICc (Version 0.0.2)
2023
AlleleShift : Predict and Visualize Population-Level Changes in Allele Frequencies in Response to Climate Change (Version 1.1-2)
2021
Arothron : Geometric Morphometric Methods and Virtual Anthropology Tools (Version 2.0.5)
2018
BAT : Biodiversity Assessment Tools (Version 2.9.6)
2014
BBI : Benthic Biotic Indices Calculation from Composition Data (Version 0.3.0)
2018
BioTIMEr : Tools to Use and Explore the 'BioTIME' Database (Version 0.2.3)
2024
BiodiversityR : Package for Community Ecology and Suitability Analysis (Version 2.16-1)
2007
CNVRG : Dirichlet Multinomial Modeling of Relative Abundance Data (Version 1.0.0)
2020
CommEcol : Community Ecology Analyses (Version 1.8.1)
2016
CoreMicrobiomeR : Identification of Core Microbiome (Version 0.1.0)
2024
DIscBIO : A User-Friendly Pipeline for Biomarker Discovery in Single-Cell Transcriptomics (Version 1.2.2)
2020
DarkDiv : Estimating Dark Diversity and Site-Specific Species Pools (Version 0.3.0)
2019
EcoIndR : Ecological Indicators (Version 2.0)
2017
EcotoneFinder : Characterising and Locating Ecotones and Communities (Version 0.2.3)
2020
EvaluateCore : Quality Evaluation of Core Collections (Version 0.1.3)
2020
FD : Measuring Functional Diversity (FD) from Multiple Traits, and Other Tools for Functional Ecology (Version 1.0-12.3)
2009
FreeSortR : Free Sorting Data Analysis (Version 1.3)
2014
GABB : Facilitation of Data Preparation and Plotting Procedures for RDA and PCA Analyses (Version 0.3.8)
2023
GCalignR : Simple Peak Alignment for Gas-Chromatography Data (Version 1.0.7)
2017
GOCompare : Comprehensive GO Terms Comparison Between Species (Version 1.0.2.1)
2021
GRNNs : General Regression Neural Networks Package (Version 0.1.0)
2021
GUniFrac : Generalized UniFrac Distances, Distance-Based Multivariate Methods and Feature-Based Univariate Methods for Microbiome Data Analysis (Version 1.8)
2012
HDANOVA : High-Dimensional Analysis of Variance (Version 0.8.1)
2024
HMP : Hypothesis Testing and Power Calculations for Comparing Metagenomic Samples from HMP (Version 2.0.1)
2011
HTSSIP : High Throughput Sequencing of Stable Isotope Probing Data Analysis (Version 1.4.1)
2016
HybridMicrobiomes : Analysis of Host-Associated Microbiomes from Hybrid Organisms (Version 0.1.1)
2023
KnowBR : Discriminating Well Surveyed Spatial Units from Exhaustive Biodiversity Databases (Version 2.2)
2017
LDM : Testing Hypotheses About the Microbiome using the Linear Decomposition Model (Version 6.0.1)
2023
LorMe : Lightening One-Code Resolving Microbial Ecology Solution (Version 1.1.0)
2024
MEclustnet : Fit the Mixture of Experts Latent Position Cluster Model to Network Data (Version 1.2.2)
2016
MiscMetabar : Miscellaneous Functions for Metabarcoding Analysis (Version 0.10.1)
2024
Momocs : Morphometrics using R (Version 1.4.1)
2012
MorphoTools2 : Multivariate Morphometric Analysis (Version 1.0.2.1)
2021
NADA2 : Data Analysis for Censored Environmental Data (Version 1.1.8)
2021
NST : Normalized Stochasticity Ratio (Version 3.1.10)
2019
NicheBarcoding : Niche-model-Based Species Identification (Version 1.0)
2021
PCPS : Principal Coordinates of Phylogenetic Structure (Version 1.0.7)
2014
Platypus : Single-Cell Immune Repertoire and Gene Expression Analysis (Version 3.6.0)
2021
PolicyPortfolios : Tools for Managing, Measuring and Visualizing Policy Portfolios (Version 0.3)
2021
PopGenReport : A Simple Framework to Analyse Population and Landscape Genetic Data (Version 3.1)
2012
ProcMod : Informative Procrustean Matrix Correlation (Version 1.0.8)
2019
ProjectionBasedClustering : Projection Based Clustering (Version 1.2.2)
2017
QFASA : Quantitative Fatty Acid Signature Analysis (Version 1.2.1)
2016
RPANDA : Phylogenetic ANalyses of DiversificAtion (Version 2.3)
2014
RRphylo : Phylogenetic Ridge Regression Methods for Comparative Studies (Version 2.8.1)
2018
RTCC : Detecting Trait Clustering in Environmental Gradients (Version 0.1.1)
2020
RVAideMemoire : Testing and Plotting Procedures for Biostatistics (Version 0.9-83-7)
2011
RVenn : Set Operations for Many Sets (Version 1.1.0)
2019
RaceID : Identification of Cell Types, Inference of Lineage Trees, and Prediction of Noise Dynamics from Single-Cell RNA-Seq Data (Version 0.3.6)
2018
ReporterScore : Generalized Reporter Score-Based Enrichment Analysis for Omics Data (Version 0.1.8)
2024
Rraven : Connecting R and 'Raven' Sound Analysis Software (Version 1.0.14)
2017
Rtapas : Random Tanglegram Partitions (Version 1.2)
2022
SQMtools : Analyze Results Generated by the 'SqueezeMeta' Pipeline (Version 1.6.3)
2023
SRS : Scaling with Ranked Subsampling (Version 0.2.3)
2020
SSP : Simulated Sampling Procedure for Community Ecology (Version 1.0.1)
2020
SYNCSA : Analysis of Functional and Phylogenetic Patterns in Metacommunities (Version 1.3.4)
2011
SigTree : Identify and Visualize Significantly Responsive Branches in a Phylogenetic Tree (Version 1.10.6)
2013
SoundShape : Sound Waves Onto Morphometric Data (Version 1.3.1)
2020
SparseLPM : The Sparse Latent Position Model for Nonnegative Interaction Data (Version 1.0)
2018
TOmicsVis : Transcriptome Visualization Process Scheme (Version 2.0.0)
2023
TaxaNorm : Feature-Wise Normalization for Microbiome Sequencing Data (Version 2.4)
2023
Toothnroll : Dental Tissues Landmarking Measuring and Mapping (Version 1.11)
2024
TraMineR : Trajectory Miner: a Sequence Analysis Toolkit (Version 2.2-10)
2008
WeightedCluster : Clustering of Weighted Data (Version 1.8-0)
2013
Xplortext : Statistical Analysis of Textual Data (Version 1.5.3)
2017
aIc : Testing for Compositional Pathologies in Datasets (Version 1.0)
2022
aPCoA : Covariate Adjusted PCoA Plot (Version 1.3)
2020
abdiv : Alpha and Beta Diversity Measures (Version 0.2.0)
2020
adegenet : Exploratory Analysis of Genetic and Genomic Data (Version 2.1.10)
2007
adespatial : Multivariate Multiscale Spatial Analysis (Version 0.3-24)
2016
analogue : Analogue and Weighted Averaging Methods for Palaeoecology (Version 0.17-7)
2006
ausplotsR : TERN AusPlots Australian Ecosystem Monitoring Data (Version 2.0.5)
2020
betapart : Partitioning Beta Diversity into Turnover and Nestedness Components (Version 1.6)
2012
betaper : Taxonomic Uncertainty on Multivariate Analyses of Ecological Data (Version 1.1-2)
2008
bingat : Binary Graph Analysis Tools (Version 1.3)
2014
biosampleR : Biodiversity Index Calculation and Bootstrap Confidence Interval Estimation (Version 1.0.4)
2023
bipartite : Visualising Bipartite Networks and Calculating Some (Ecological) Indices (Version 2.20)
2007
bipartiteD3 : Interactive Bipartite Graphs (Version 0.3.2)
2018
blender : Analyze biotic homogenization of landscapes (Version 0.1.2)
2010
canaper : Categorical Analysis of Neo- And Paleo-Endemism (Version 1.0.1)
2022
cassandRa : Finds Missing Links and Metric Confidence Intervals in Ecological Bipartite Networks (Version 0.2.0)
2019
cati : Community Assembly by Traits: Individuals and Beyond (Version 0.99.4)
2014
chemodiv : Analysing Chemodiversity of Phytochemical Data (Version 0.3.0)
2022
cml : Conditional Manifold Learning (Version 0.2.2)
2021
cocorresp : Co-Correspondence Analysis Methods (Version 0.4-5)
2005
codyn : Community Dynamics Metrics (Version 2.0.5)
2015
comsimitv : Flexible Framework for Simulating Community Assembly (Version 0.1.5)
2020
dartR.spatial : Applying Landscape Genomic Methods on 'SNP' and 'Silicodart' Data (Version 0.78)
2023
dartR : Importing and Analysing 'SNP' and 'Silicodart' Data Generated by Genome-Wide Restriction Fragment Analysis (Version 2.9.7)
2017
diathor : Calculate Ecological Information and Diatom Based Indices (Version 0.1.4)
2020
dilp : Reconstruct Paleoclimate and Paleoecology with Leaf Physiognomy (Version 1.1.0)
2024
dimRed : A Framework for Dimensionality Reduction (Version 0.2.6)
2017
dispRity : Measuring Disparity (Version 1.8)
2018
dissCqN : Multiple Assemblage Dissimilarity for Orders q = 0-N (Version 0.1.0)
2021
divDyn : Diversity Dynamics using Fossil Sampling Data (Version 0.8.2)
2018
divvy : Spatial Subsampling of Biodiversity Occurrence Data (Version 1.0.0)
2023
douconca : Double Constrained Correspondence Analysis for Trait-Environment Analysis in Ecology (Version 1.2.1)
2024
dynRB : Dynamic Range Boxes (Version 0.18)
2015
eHOF : Extended HOF (Huisman-Olff-Fresco) Models (Version 1.15)
2013
easyCODA : Compositional Data Analysis in Practice (Version 0.40.2)
2018
ecan : Ecological Analysis and Visualization (Version 0.2.1)
2023
ecocbo : Calculating Optimum Sampling Effort in Community Ecology (Version 0.12.0)
2023
ecospace : Simulating Community Assembly and Ecological Diversification Using Ecospace Frameworks (Version 1.4.2)
2015
ecoregime : Analysis of Ecological Dynamic Regimes (Version 0.2.0)
2023
ecolottery : Coalescent-Based Simulation of Ecological Communities (Version 1.0.0)
2017
ecospat : Spatial Ecology Miscellaneous Methods (Version 4.1.1)
2014
ecotraj : Ecological Trajectory Analysis (Version 0.1.1)
2021
ecostats : Code and Data Accompanying the Eco-Stats Text (Warton 2022) (Version 1.2.1)
2020
evolqg : Evolutionary Quantitative Genetics (Version 0.3-4)
2015
forams : Foraminifera and Community Ecology Analyses (Version 2.0-6)
2011
fundiversity : Easy Computation of Functional Diversity Indices (Version 1.1.1)
2021
funspace : Creating and Representing Functional Trait Spaces (Version 0.2.2)
2023
gdm : Generalized Dissimilarity Modeling (Version 1.6.0-2)
2015
ggordiplots : Make 'ggplot2' Versions of Vegan's Ordiplots (Version 0.4.3)
2023
glmm.hp : Hierarchical Partitioning of Marginal R2 for Generalized Mixed-Effect Models (Version 0.1-6)
2022
glottospace : Language Mapping and Geospatial Analysis of Linguistic and Cultural Data (Version 0.0.112)
2022
goeveg : Functions for Community Data and Ordinations (Version 0.7.5)
2016
graph4lg : Build Graphs for Landscape Genetics Analysis (Version 1.8.0)
2019
grapherator : A Modular Multi-Step Graph Generator (Version 1.0.0)
2017
hagis : Analysis of Plant Pathogen Pathotype Complexities, Distributions and Diversity (Version 3.1.12)
2019
hilldiv : Integral Analysis of Diversity Based on Hill Numbers (Version 1.5.1)
2019
iCAMP : Infer Community Assembly Mechanisms by Phylogenetic-Bin-Based Null Model Analysis (Version 1.5.12)
2020
idar : Individual Diversity-Area Relationships (Version 1.5)
2017
isopam : Clustering of Sites with Species Data (Version 2.0)
2010
knfi : Analysis of Korean National Forest Inventory Database (Version 1.0.0)
2024
labdsv : Ordination and Multivariate Analysis for Ecology (Version 2.1-0)
2005
mFD : Compute and Illustrate the Multiple Facets of Functional Diversity (Version 1.0.7)
2021
mcMST : A Toolbox for the Multi-Criteria Minimum Spanning Tree Problem (Version 1.1.1)
2017
mefa : Multivariate Data Handling in Ecology and Biogeography (Version 3.2-9)
2007
memgene : Spatial Pattern Detection in Genetic Distance Data Using Moran's Eigenvector Maps (Version 1.0.2)
2014
metacom : Analysis of the 'Elements of Metacommunity Structure' (Version 1.5.3)
2013
metrix : Water Quality Metrics Calculator (Version 1.1.0)
2022
microbial : Do 16s Data Analysis and Generate Figures (Version 0.0.21)
2020
microbiomeMQC : Calculate 4 Key Reporting Measures (Version 1.0.2)
2024
microeco : Microbial Community Ecology Data Analysis (Version 1.9.1)
2020
mirt : Multidimensional Item Response Theory (Version 1.42)
2011
mixKernel : Omics Data Integration Using Kernel Methods (Version 0.9-1)
2017
mobsim : Spatial Simulation and Scale-Dependent Analysis of Biodiversity Changes (Version 0.3.1)
2017
mpmcorrelogram : Multivariate Partial Mantel Correlogram (Version 0.1-4)
2010
naturaList : Classify Occurrences by Confidence Levels in the Species ID (Version 0.5.2)
2021
neonPlantEcology : Process NEON Plant Data for Ecological Analysis (Version 1.6.1)
2024
netassoc : Inference of Species Associations from Co-Occurrence Data (Version 0.7.0)
2015
netcom : NETwork COMparison Inference (Version 2.1.7)
2017
node2vec : Algorithmic Framework for Representational Learning on Graphs (Version 0.1.0)
2021
nodiv : Compares the Distribution of Sister Clades Through a Phylogeny (Version 1.4.2)
2014
octopucs : Statistical Support for Hierarchical Clusters (Version 0.1.1)
2024
ordiBreadth : Ordinated Diet Breadth (Version 1.0)
2015
ordr : A 'tidyverse' Extension for Ordinations and Biplots (Version 0.1.1)
2022
paco : Procrustes Application to Cophylogenetic Analysis (Version 0.4.2)
2015
palaeoSig : Significance Tests for Palaeoenvironmental Reconstructions (Version 2.1-3)
2011
paleoAM : Simulating Assemblage Models of Abundance for the Fossil Record (Version 1.0.1)
2024
patternize : Quantification of Color Pattern Variation (Version 0.0.5)
2017
pctax : Professional Comprehensive Omics Data Analysis (Version 0.1.1)
2024
pcutils : Some Useful Functions for Statistics and Visualization (Version 0.2.6)
2023
permute : Functions for Generating Restricted Permutations of Data (Version 0.9-7)
2011
pez : Phylogenetics for the Environmental Sciences (Version 1.2-4)
2014
phyloregion : Biogeographic Regionalization and Macroecology (Version 1.0.8)
2020
phylotools : Phylogenetic Tools for Eco-Phylogenetics (Version 0.2.2)
2010
picante : Integrating Phylogenies and Ecology (Version 1.8.2)
2008
poppr : Genetic Analysis of Populations with Mixed Reproduction (Version 2.9.6)
2013
primer : Functions and Data for the Book, a Primer of Ecology with R (Version 1.2.0)
2009
raptr : Representative and Adequate Prioritization Toolkit in R (Version 1.0.1)
2016
rareNMtests : Ecological and Biogeographical Null Model Tests for Comparing Rarefaction Curves (Version 1.2)
2014
rdacca.hp : Hierarchical and Variation Partitioning for Canonical Analysis (Version 1.1-1)
2020
recluster : Ordination Methods for the Analysis of Beta-Diversity Indices (Version 2.9)
2013
restoptr : Ecological Restoration Planning (Version 1.0.6)
2022
rioja : Analysis of Quaternary Science Data (Version 1.0-7)
2009
sads : Maximum Likelihood Models for Species Abundance Distributions (Version 0.6.3)
2014
segRDA : Modeling Non-Continuous Linear Responses of Ecological Data (Version 1.0.2)
2019
seriation : Infrastructure for Ordering Objects Using Seriation (Version 1.5.6)
2007
shapeR : Collection and Analysis of Otolith Shape Data (Version 1.0-1)
2015
sharpshootR : A Soil Survey Toolkit (Version 2.3.2)
2014
shipunov : Miscellaneous Functions from Alexey Shipunov (Version 1.17.1)
2019
smacofx : Flexible Multidimensional Scaling and 'smacof' Extensions (Version 1.6-1)
2023
smartsnp : Fast Multivariate Analyses of Big Genomic Data (Version 1.1.0)
2021
soundecology : Soundscape Ecology (Version 1.3.3)
2013
spaa : SPecies Association Analysis (Version 0.2.2)
2010
spaceNet : Latent Space Models for Multidimensional Networks (Version 1.2)
2018
spmoran : Fast Spatial and Spatio-Temporal Regression using Moran Eigenvectors (Version 0.3.1)
2017
stops : Structure Optimized Proximity Scaling (Version 1.8-2)
2023
supportR : Support Functions for Wrangling and Visualization (Version 1.4.0)
2023
surveyvoi : Survey Value of Information (Version 1.0.6)
2021
tapnet : Trait Matching and Abundance for Predicting Bipartite Networks (Version 0.3)
2021
tidypaleo : Tidy Tools for Paleoenvironmental Archives (Version 0.1.3)
2021
tspmeta : Instance Feature Calculation and Evolutionary Instance Generation for the Traveling Salesman Problem (Version 1.2)
2013
ulrb : Unsupervised Learning Based Definition of Microbial Rare Biosphere (Version 0.1.5)
2023
vcfR : Manipulate and Visualize VCF Data (Version 1.15.0)
2016
vegan3d : Static and Dynamic 3D and Editable Interactive Plots for the 'vegan' Package (Version 1.3-0)
2014
vegclust : Fuzzy Clustering of Vegetation Data (Version 2.0.2)
2012
vegdata : Access Vegetation Databases and Treat Taxonomy (Version 0.9.12)
2009
vegtable : Handling Vegetation Data Sets (Version 0.1.8)
2017
visvow : Visible Vowels: Visualization of Vowel Variation (Version 1.3.11)
2018
yaImpute : Nearest Neighbor Observation Imputation and Evaluation Tools (Version 1.0-34.1)
2007
zetadiv : Functions to Compute Compositional Turnover Using Zeta Diversity (Version 1.2.1)
2015
Showing 1-219 of 219
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