# Questions tagged [networks]

Refers to network theory as part of the graph theory. For questions about neural networks, use our [neural-networks] tag.

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### How to handle missing data when calculating network homophily/assortativity?

I am trying to calculate network homophily/assortativity for a graph. However, some of my nodes have missing values. It turns out igraph's assortativity functions have no "na.rm" function ...
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### Inference on a Gaussian random field / undirected graph?

Assume I have an undirected graph with $D$ nodes, and a $D$-by-$D$ matrix with edge strengths between $0$ (implying conditional indepedence given all other nodes), and $1$ (implying complete ...
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### Application of Bayesian Networks to tabular data

I have been going through some tutorials regarding Bayesian Networks, but i have yet to see them applied to tabular data, i.e. a dataset. I have created this dummy example to experiment, and attempt ...
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### Compute assortativity for each type of nodes using igraph package

I want to compute the assortativity coefficient for each type of node using the assortativity_nominal() function from igraph package. However, this function only ...
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### preferential attachment exponent (pa.exp in R) and network centrality

Is there a paper showing how the preferential attachment exponent (pa.exp in R)of a network affects its centrality? From simulations, I saw that low pa.exp results in low centrality. That is expected. ...
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### Graph/Network Clustering Models that Use Covariate Information

I have been reading about Clustering Models on Graph/Network data. For example, there seems to be a popular Clustering Model for Graph/Network data called Louvain Clustering (https://en.wikipedia.org/...
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### Normalization of coordinate in panel data? (timeseries)

I'm working with the neural networks and motion prediction on mesh data. Objective of neural network is to predict $T_p$ frames in the future, given previuos $T_s$ frames. We have let's say 10 objects....
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### Bootnet case-dropping bootstrap stops with no specific error message

I'm running a network analysis in R using qgraph and bootnet. When running the case-dropping bootstrap to estimate correlation-stability coefficients of centrality indices, the alogithm simply "...
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### Network analysis: density of communities/partitions (and other metrics)

After running a community detection algorhythm (e.g. edge betweenness, or greedy modularity), I like know the density of each seperate community, and potentially some other metrics, too. My desired ...
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1 vote
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### what would a network looks like if the modularity is almost -1?

I know that larger positive modularity is good, and often lies between -0.5 and 1. But what would the network looks like if the modularity is appoaching -1? For example, equals to -0.7?
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1 vote
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### Constructing a Weighted Random Graph

I want to create a weighted random graph (in contrast to the unweighted Erdős–Rényi model). I have a list of weights (derived from a real-world network, very skewed distribution that most weights are ...
1 vote
17 views

### Model Comparison for Weighted Network

I have a weighted network data and I want to know whether this network possesses small-world features or the features of a scale-free network. I know for unweighted networks, I can create comparable ...
1 vote
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### Is Kendall's tau adequate to test for a non-monotonic relationship?

Goal Networks can have so many nodes that it's hard to study them. That is why in some cases nodes are clustered together. I am looking at whether the betweenness of a node is maintained after the ...
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1 vote
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### How can I perform a meta-analysis on Kendall's tau?

Goal Networks can have so many nodes that it's hard to study them. That is why in some cases nodes are clustered together. I am looking at whether the betweenness of a node similar to the one of its ...
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1 vote
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### Given a graph, test if some vertices are more connected than the background

I have a neighborhood graph of some 10k vertices (a k-NN graph of single-cell RNA-seq data). I am interested if a given set of vertices is more connected to each other than you would expect by chance. ...
• 115
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### Network clustering stability using bootstrapping techniques

I use the standard modularity-maximisation Louvain clustering method to partition a large undirected network into communities. I fear the result of the partition is quite fragile. Is there a standard ...
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### Inference in a system in which (almost) all regressors are endogenous

We conducted a number of tests on individual species over a period of several days. Let $x_{k,s,t}$ denote the result of test $k$ for species $s$ at time $t$. In total there are $S$ species, $K$ tests,...
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### Predictions in a system in which (almost) all regressors are endogenous

Consider the following system where all variables are endogenous. \begin{align*} x_{1} & =\beta_{21}x_{2}+\beta_{31}x_{3}+u_{1}\\ x_{2} & =\beta_{12}x_{1}+\beta_{32}x_{3}+u_{2}\\ x_{3} &...
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### social network measure of node's crowdedness

The undirected network below shows the interaction of workers (blue nodes) with products worked on during a time period. The thickness of the edges/arcs indicates how much time the worker spends on a ...
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### Evaluation of gene regulatory network

I am new to this forum and data science, I will try my best to describe my question. Question background: I am molecular biology student and have recently inferred a gene expression network using 105 ...
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1 vote
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### How to create a Bayesian network? [closed]

I have the following question and I really need help please: Consider the following hypothetical scenario. A car company would like to use a Bayesian Network model to better predict whether a certain ...
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### What is the difference between brokerage and betweenness?

This link describes betweenness: "Betweenness centrality measures the extent to which a vertex lies on paths between other vertices." This link describes brokerage: "Brokerage is a ...
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### To estimate a Markov random field, do we have to assume a DAG generated the data?

Even if I believe that I understood the Markov Random Fields and DAGs separately, I encountered a question that I have written in the title and cannot come up with a clear-cut answer. Can you help me ...
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### Identify individual networks within dataset containing many (using SAS preferably)

I have a dataset of links/edges that looks something like the following (except significantly larger - approx. 50,000 links): ...
728 views

### What is the difference between local efficiency and betweenness centrality in network analysis?

There are many network properties that you can extract for a given node. Two I have encountered that sound conceptually very similar to me and that I have difficulty distinguishing are betweenness ...
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1 vote
Say I have a (directed) graph $G$ with an adjacency matrix $A$. For the sake of the question, let's assume it's normalized column-wise (edge weights are normalized so the sum of out-edge weights per ...