bifun_clu

main function for bifunctional clustering

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>.

Ang Dong

idopNetwork

A Network Tool to Dissect Spatial Community Ecology

bifun_clu function

<dl><dt>data1</dt>
<dd>matrix or data for cluster</dd>
<dt>data2</dt>
<dd>matrix or data for cluster</dd>
<dt>k</dt>
<dd>vector for the cluster number</dd>
<dt>Time1</dt>
<dd>vector for the time point</dd>
<dt>Time2</dt>
<dd>vector for the time point</dd>
<dt>trans</dt>
<dd>indicate log/log2/log10 transform dataset</dd>
<dt>inv.cov</dt>
<dd>matrix for directly solve cov matrix, default not given(currently not available)</dd>
<dt>initial.pars</dt>
<dd>vector for manual give initial parameters, default not given</dd>
<dt>iter.max</dt>
<dd>scales control iteration for EM algorithm</dd>
<dt>parscale</dt>
<dd>scales control parameters scales for cov pars</dd></dl>

Arguments

main function for bifunctional clustering — bifun_clu

<dl>

<dt>data1</dt>
<dd>matrix or data for cluster</dd>


<dt>data2</dt>
<dd>matrix or data for cluster</dd>


<dt>k</dt>
<dd>vector for the cluster number</dd>


<dt>Time1</dt>
<dd>vector for the time point</dd>


<dt>Time2</dt>
<dd>vector for the time point</dd>


<dt>trans</dt>
<dd>indicate log/log2/log10 transform dataset</dd>


<dt>inv.cov</dt>
<dd>matrix for directly solve cov matrix, default not given(currently not available)</dd>


<dt>initial.pars</dt>
<dd>vector for manual give initial parameters, default not given</dd>


<dt>iter.max</dt>
<dd>scales control iteration for EM algorithm</dd>


<dt>parscale</dt>
<dd>scales control parameters scales for cov pars</dd>

</dl>

bifun_clu: main function for bifunctional clustering

Description

Usage

Value

Arguments