A Network Tool to Dissect Spatial Community Ecology
main function for bifunctional clustering
convert result of bifunctional clustering result
parallel version for functional clustering
bifunctional clustering plot
acquire initial parameters for functional clustering
plot power equation fitting results for bi-variate model
Q-function to replace log-likelihood function
plot all decompose plot for two data
plot single decompose plot for two data
make color more dark
remove observation with too many 0 values
match power_equation fit result for bi-variate model
main function for functional clustering
plot BIC results for functional clustering
convert result of functional clustering result
parallel version for functional clustering
functional clustering plot
select result of functional clustering result
generate biSAD1 covariance matrix
Lasso-based variable selection
generate legendre matrix
use legendre polynomials to fit a given data
curve fit with modified logistic function
generate mean vectors with ck and stress condition
acquire initial parameters for functional clustering
generate standard SAD1 covariance matrix
generate curve based on legendre polynomials
calculate log-sum-exp values
convert ODE results(ODE_solving2) to basic network plot table
convert ODE results(ODE_solving2) to basic network plot table
generate network plot
min-max normalization
use power equation parameters to generate y values
use power equation to fit observed values
use power equation to fit observed values
use power equation to fit given dataset
plot power equation fitting results
Q-function to replace log-likelihood function
wrapper for qdODE model
legendre polynomials fit to qdODE model
least-square fit for qdODE model
wrapper for qdODE_all in parallel version
plot all decompose plot
plot single decompose plot
quasi-dynamic lotka volterra model
convert qdODE results to plot data
Most existing approaches for network reconstruction can only infer an overall network and, also, fail to capture a complete set of network properties. To address these issues, a new model has been developed, which converts static data into their 'dynamic' form. 'idopNetwork' is an 'R' interface to this model, it can inferring informative, dynamic, omnidirectional and personalized networks. For more information on functional clustering part, see Kim et al. (2008) <doi:10.1534/genetics.108.093690>, Wang et al. (2011) <doi:10.1093/bib/bbr032>. For more information on our model, see Chen et al. (2019) <doi:10.1038/s41540-019-0116-1>, and Cao et al. (2022) <doi:10.1080/19490976.2022.2106103>.
Useful links