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pymfinder: a tool for the motif analysis of binary and quantitative complex networks

https://doi.org/10.1101/364703
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/cplx.10047openalex-snapshot
Network analysis, complexity, and brain function
inferredcites →https://doi.org/10.1002/ecy.1756openalex-snapshot
Functional consequences of plant‐animal interactions along the mutualism‐antagonism gradient
inferredcites →https://doi.org/10.1007/s004420050589openalex-snapshot
Null matrices and the analysis of species co-occurrences
inferredcites →https://doi.org/10.1016/j.jtbi.2006.12.036openalex-snapshot
Quantitative analysis of the local structure of food webs
inferredcites →https://doi.org/10.1038/35004572openalex-snapshot
Simple rules yield complex food webs
inferredcites →https://doi.org/10.1038/ng881openalex-snapshot
Network motifs in the transcriptional regulation network of Escherichia coli
inferredcites →https://doi.org/10.1038/s41467-018-05056-0openalex-snapshot
Identifying a common backbone of interactions underlying food webs from different ecosystems
inferredcites →https://doi.org/10.1073/pnas.0306752101openalex-snapshot
Network motifs in integrated cellular networks of transcription–regulation and protein–protein interaction
inferredcites →https://doi.org/10.1073/pnas.0501562102openalex-snapshot
Interaction strength combinations and the overfishing of a marine food web
inferredcites →https://doi.org/10.1073/pnas.0603844103openalex-snapshot
A robust measure of food web intervality
inferredcites →https://doi.org/10.1073/pnas.1633576100openalex-snapshot
The nested assembly of plant–animal mutualistic networks
inferredcites →https://doi.org/10.1093/bioinformatics/bth163openalex-snapshot
Efficient sampling algorithm for estimating subgraph concentrations and detecting network motifs
inferredcites →https://doi.org/10.1093/bioinformatics/btl038openalex-snapshot
FANMOD: a tool for fast network motif detection
inferredcites →https://doi.org/10.1098/rspb.2003.2592openalex-snapshot
Weak interactions, omnivory and emergent food-web properties
inferredcites →https://doi.org/10.1098/rspb.2007.0571openalex-snapshot
Evidence for the existence of a robust pattern of prey selection in food webs
inferredcites →https://doi.org/10.1103/physreve.66.016128openalex-snapshot
Spread of epidemic disease on networks
inferredcites →https://doi.org/10.1103/physreve.76.036102openalex-snapshot
Module identification in bipartite and directed networks
inferredcites →https://doi.org/10.1111/1365-2656.12323openalex-snapshot
Concomitant predation on parasites is highly variable but constrains the ways in which parasites contribute to food web structure
inferredcites →https://doi.org/10.1111/ecog.00913openalex-snapshot
Species’ roles in food webs show fidelity across a highly variable oak forest
inferredcites →https://doi.org/10.1111/ele.12002openalex-snapshot
The dissimilarity of species interaction networks
inferredcites →https://doi.org/10.1111/ele.12955openalex-snapshot
Feeding environment and other traits shape species’ roles in marine food webs
inferredcites →https://doi.org/10.1111/j.1541-0420.2005.00440.xopenalex-snapshot
Distance‐Based Tests for Homogeneity of Multivariate Dispersions
inferredcites →https://doi.org/10.1111/oik.02176openalex-snapshot
Selection against instability: stable subgraphs are most frequent in empirical food webs
inferredcites →https://doi.org/10.1111/oik.05074openalex-snapshot
Between‐year changes in community composition shape species’ roles in an Arctic plant–pollinator network
inferredcites →https://doi.org/10.1126/science.1068326openalex-snapshot
Stability in Real Food Webs: Weak Links in Long Loops
inferredcites →https://doi.org/10.1126/science.1216556openalex-snapshot
Evolutionary Conservation of Species’ Roles in Food Webs
inferredcites →https://doi.org/10.1126/science.298.5594.824openalex-snapshot
Network Motifs: Simple Building Blocks of Complex Networks
inferredcites →https://doi.org/10.1890/05-0101openalex-snapshot
SIMPLE TROPHIC MODULES FOR COMPLEX FOOD WEBS
inferredcites →https://doi.org/10.2174/1874213000902010007openalex-snapshot
Indices, Graphs and Null Models: Analyzing Bipartite Ecological Networks
inferredcites →https://doi.org/10.23943/princeton/9780691131269.001.0001openalex-snapshot
Mutualistic Networks
inferredcites →https://doi.org/10.3724/sp.j.1087.2009.02191openalex-snapshot
Design of integrated system for heterogeneous network query terminal
inferredcites →https://doi.org/10.48550/arxiv.cond-mat/0312028openalex-snapshot
On the uniform generation of random graphs with prescribed degree sequences

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1002/ecog.07823openalex-snapshot
‘ILSM': a package to analyze the interconnection structure of tripartite interaction networks
inferred← citeshttps://doi.org/10.1002/ecy.70119openalex-snapshot
Changes in species composition and community structure during plant–pollinator community assembly
inferred← citeshttps://doi.org/10.1007/s41109-020-00293-zopenalex-snapshot
Motif-based spectral clustering of weighted directed networks
inferred← citeshttps://doi.org/10.1016/j.fooweb.2018.e00093openalex-snapshot
A review of species role concepts in food webs
inferred← citeshttps://doi.org/10.1038/s41467-020-17894-yopenalex-snapshot
Untangling the seasonal dynamics of plant-pollinator communities
inferred← citeshttps://doi.org/10.1038/s41559-021-01434-yopenalex-snapshot
Pollinator interaction flexibility across scales affects patch colonization and occupancy
inferred← citeshttps://doi.org/10.1098/rsif.2018.0747openalex-snapshot
Unmasking structural patterns in incidence matrices: an application to ecological data
inferred← citeshttps://doi.org/10.1101/2020.06.10.144949openalex-snapshot
Food web structure alters ecological communities top-heaviness with little effect on the biodiversity-functioning relationship
inferred← citeshttps://doi.org/10.1101/2024.06.21.600080openalex-snapshot
Glacier retreat decreases plant--pollinator network robustness over space-time
inferred← citeshttps://doi.org/10.1111/1365-2435.13736openalex-snapshot
Niche and neutral processes leave distinct structural imprints on indirect interactions in mutualistic networks
inferred← citeshttps://doi.org/10.1111/1365-2656.14081openalex-snapshot
Species motif participation provides unique information about species risk of extinction
inferred← citeshttps://doi.org/10.1111/ecog.04310openalex-snapshot
EcologicalNetworks.jl: analysing ecological networks of species interactions
inferred← citeshttps://doi.org/10.1111/ecog.07558openalex-snapshot
Glacier retreat decreases mutualistic network robustness over spacetime
inferred← citeshttps://doi.org/10.1111/oik.05670openalex-snapshot
Motifs in bipartite ecological networks: uncovering indirect interactions
inferred← citeshttps://doi.org/10.1111/oik.08512openalex-snapshot
Incongruent drivers of network, species and interaction persistence in food webs
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