Man pages for idopNetwork
A Network Tool to Dissect Spatial Community Ecology

bifun_clumain function for bifunctional clustering
bifun_clu_convertconvert result of bifunctional clustering result
bifun_clu_parallelparallel version for functional clustering
bifun_clu_plotbifunctional clustering plot
biget_par_intacquire initial parameters for functional clustering
bipower_equation_plotplot power equation fitting results for bi-variate model
biqdODE_plot_allplot all decompose plot for two data
biqdODE_plot_baseplot single decompose plot for two data
biQ_functionQ-function to replace log-likelihood function
darkenmake color more dark
data_cleaningremove observation with too many 0 values
data_matchmatch power_equation fit result for bi-variate model
fun_clumain function for functional clustering
fun_clu_BICplot BIC results for functional clustering
fun_clu_convertconvert result of functional clustering result
fun_clu_parallelparallel version for functional clustering
fun_clu_plotfunctional clustering plot
fun_clu_selectselect result of functional clustering result
get_biSAD1generate biSAD1 covariance matrix
get_interactionLasso-based variable selection
get_legendre_matrixgenerate legendre matrix
get_legendre_paruse legendre polynomials to fit a given data
get_mucurve fit with modified logistic function
get_mu2generate mean vectors with ck and stress condition
get_par_intacquire initial parameters for functional clustering
get_SAD1_covmatrixgenerate standard SAD1 covariance matrix
gut_microbegut microbe OTU data (species level)
legendre_fitgenerate curve based on legendre polynomials
logsumexpcalculate log-sum-exp values
mustard_microbemustard microbe OTU data
network_conversionconvert ODE results(ODE_solving2) to basic network plot table
network_maxeffectconvert ODE results(ODE_solving2) to basic network plot table
network_plotgenerate network plot
normalizationmin-max normalization
power_equationuse power equation parameters to generate y values
power_equation_alluse power equation to fit observed values
power_equation_baseuse power equation to fit observed values
power_equation_fituse power equation to fit given dataset
power_equation_plotplot power equation fitting results
qdODE_allwrapper for qdODE model
qdODE_fitlegendre polynomials fit to qdODE model
qdODE_lsleast-square fit for qdODE model
qdODEmodquasi-dynamic lotka volterra model
qdODE_parallelwrapper for qdODE_all in parallel version
qdODE_plot_allplot all decompose plot
qdODE_plot_baseplot single decompose plot
qdODEplot_convertconvert qdODE results to plot data
Q_functionQ-function to replace log-likelihood function
idopNetwork documentation built on April 18, 2023, 9:09 a.m.