REFERENCES.md
In ultraviolet-1986/umbrella: Umbrella: A Biased Generic Random Walk Algorithm for Community Detection
Umbrella: References and Resources
This is a compilation of links which have provided background, data, code
examples and interesting information which have guided this project so far. Note
that this list may be incomplete and will be updated.
- http://geneontology.org/
- http://konect.cc/networks/ucidata-zachary/
- http://konect.uni-koblenz.de/networks/opsahl-powergrid
- http://networksciencebook.com/
- http://robot.obolibrary.org/
- http://vlado.fmf.uni-lj.si/pub/networks/data/bio/foodweb/foodweb.htm
- http://www.mtholyoke.edu/~tchumley/s395/Networks_Ch3.html
- http://www.obofoundry.org/ontology/wbphenotype.html
- http://www.shizukalab.com/toolkits/sna/sna_data
- http://www.sthda.com/english/wiki/saving-data-into-r-data-format-rds-and-rdata
- https://3uzly11fn22f2ax25l6snwb1-wpengine.netdna-ssl.com/wp-content/uploads/map-of-internet.png
- https://archive.ics.uci.edu/ml/index.php
- https://arxiv.org/pdf/1712.06468.pdf
- https://bioportal.bioontology.org/ontologies/ECSO/?p=summary
- https://bookdown.org/ndphillips/YaRrr/dataframe-column-names.html
- https://briatte.github.io/ggnet/
- https://ci.mines-stetienne.fr/seas/ElectricPowerSystemOntology
- https://cran.r-project.org/mirrors.html
- https://cran.r-project.org/web/packages/data.tree/vignettes/data.tree.html
- https://cran.r-project.org/web/packages/diffusr/vignettes/diffusr.html
- https://github.com/datacamp/authoring/issues/52
- https://github.com/dkaslovsky/Coupled-Biased-Random-Walks
- https://github.com/igraph/igraph/blob/master/src/random_walk.c
- https://github.com/kenmcgarry/ComplexNetworks
- https://github.com/laderast/igraphTutorial/blob/master/igraphNetworks.Rmd
- https://github.com/ontodev/robot
- https://github.com/wwkong/Biased-Random-Walk
- https://igraph.org/r/doc/as_adjacency_matrix.html
- https://igraph.org/r/doc/communities.html
- https://igraph.org/r/doc/degree.html
- https://igraph.org/r/doc/graph_from_adjacency_matrix.html
- https://igraph.org/r/doc/simplify.html
- https://kateto.net/wp-content/uploads/2016/01/NetSciX_2016_Workshop.pdf
- https://networkdata.ics.uci.edu/netdata/html/floridaFoodWebs.html
- https://onlinelibrary.wiley.com/doi/full/10.1002/ece3.3648
- https://protege.stanford.edu/
- https://protegewiki.stanford.edu/wiki/Protege_Ontology_Library
- https://rdrr.io/cran/igraphdata/man/foodwebs.html
- https://realpython.com/instance-class-and-static-methods-demystified/
- https://snap.stanford.edu/data/
- https://snap.stanford.edu/data/C-elegans-frontal.html
- https://snap.stanford.edu/data/cit-HepPh.html
- https://snap.stanford.edu/data/Florida-bay.html
- https://sparontologies.github.io/cito/current/cito.html
- https://stackoverflow.com/questions/11488174/how-to-select-a-cran-mirror-in-r
- https://stackoverflow.com/questions/12384071/how-to-coerce-a-list-object-to-type-double
- https://stackoverflow.com/questions/35366187/how-to-write-if-else-statements-if-dataframe-is-empty
- https://stackoverflow.com/questions/40086031/remove-self-loops-and-vertex-with-no-edges
- https://stackoverflow.com/questions/46651278/how-to-compute-random-walk-between-all-pairs-of-nodes-in-graph
- https://stackoverflow.com/questions/47837607/creating-a-transitions-matrix-for-markov-model-in-r
- https://stackoverflow.com/questions/4904972/convert-igraph-object-to-a-data-frame-in-r
- https://stackoverflow.com/questions/49095518/more-efficient-way-to-run-a-random-walk-on-a-transition-matrix-than-the-igraph
- https://stats.stackexchange.com/questions/206447/how-to-create-a-random-walk-model-using-forecast-r-package
- https://stats.stackexchange.com/questions/26722/calculate-transition-matrix-markov-in-r
- https://www.biorxiv.org/content/10.1101/106369v1.full
- https://www.datascienceontology.org/
- https://www.mosaicdatascience.com/blogs/ontology-101-part-1-what-is-an-ontology/
- https://www.mosaicdatascience.com/blogs/ontology-101-part-2-a-practical-application-of-an-ontology/
- https://www.r-bloggers.com/a-plot-of-250-random-walks/
- https://www.rdocumentation.org/packages/sna/versions/2.3-2/topics/gplot.layout
- https://www.sciencedirect.com/topics/mathematics/transition-probability-matrix
- https://www.stat.auckland.ac.nz/~ihaka/downloads/Waikato-WRUG.pdf
- https://www.w3.org/wiki/Good_Ontologies
ultraviolet-1986/umbrella documentation built on July 20, 2020, 9:02 p.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Umbrella: References and Resources
This is a compilation of links which have provided background, data, code examples and interesting information which have guided this project so far. Note that this list may be incomplete and will be updated.
- http://geneontology.org/
- http://konect.cc/networks/ucidata-zachary/
- http://konect.uni-koblenz.de/networks/opsahl-powergrid
- http://networksciencebook.com/
- http://robot.obolibrary.org/
- http://vlado.fmf.uni-lj.si/pub/networks/data/bio/foodweb/foodweb.htm
- http://www.mtholyoke.edu/~tchumley/s395/Networks_Ch3.html
- http://www.obofoundry.org/ontology/wbphenotype.html
- http://www.shizukalab.com/toolkits/sna/sna_data
- http://www.sthda.com/english/wiki/saving-data-into-r-data-format-rds-and-rdata
- https://3uzly11fn22f2ax25l6snwb1-wpengine.netdna-ssl.com/wp-content/uploads/map-of-internet.png
- https://archive.ics.uci.edu/ml/index.php
- https://arxiv.org/pdf/1712.06468.pdf
- https://bioportal.bioontology.org/ontologies/ECSO/?p=summary
- https://bookdown.org/ndphillips/YaRrr/dataframe-column-names.html
- https://briatte.github.io/ggnet/
- https://ci.mines-stetienne.fr/seas/ElectricPowerSystemOntology
- https://cran.r-project.org/mirrors.html
- https://cran.r-project.org/web/packages/data.tree/vignettes/data.tree.html
- https://cran.r-project.org/web/packages/diffusr/vignettes/diffusr.html
- https://github.com/datacamp/authoring/issues/52
- https://github.com/dkaslovsky/Coupled-Biased-Random-Walks
- https://github.com/igraph/igraph/blob/master/src/random_walk.c
- https://github.com/kenmcgarry/ComplexNetworks
- https://github.com/laderast/igraphTutorial/blob/master/igraphNetworks.Rmd
- https://github.com/ontodev/robot
- https://github.com/wwkong/Biased-Random-Walk
- https://igraph.org/r/doc/as_adjacency_matrix.html
- https://igraph.org/r/doc/communities.html
- https://igraph.org/r/doc/degree.html
- https://igraph.org/r/doc/graph_from_adjacency_matrix.html
- https://igraph.org/r/doc/simplify.html
- https://kateto.net/wp-content/uploads/2016/01/NetSciX_2016_Workshop.pdf
- https://networkdata.ics.uci.edu/netdata/html/floridaFoodWebs.html
- https://onlinelibrary.wiley.com/doi/full/10.1002/ece3.3648
- https://protege.stanford.edu/
- https://protegewiki.stanford.edu/wiki/Protege_Ontology_Library
- https://rdrr.io/cran/igraphdata/man/foodwebs.html
- https://realpython.com/instance-class-and-static-methods-demystified/
- https://snap.stanford.edu/data/
- https://snap.stanford.edu/data/C-elegans-frontal.html
- https://snap.stanford.edu/data/cit-HepPh.html
- https://snap.stanford.edu/data/Florida-bay.html
- https://sparontologies.github.io/cito/current/cito.html
- https://stackoverflow.com/questions/11488174/how-to-select-a-cran-mirror-in-r
- https://stackoverflow.com/questions/12384071/how-to-coerce-a-list-object-to-type-double
- https://stackoverflow.com/questions/35366187/how-to-write-if-else-statements-if-dataframe-is-empty
- https://stackoverflow.com/questions/40086031/remove-self-loops-and-vertex-with-no-edges
- https://stackoverflow.com/questions/46651278/how-to-compute-random-walk-between-all-pairs-of-nodes-in-graph
- https://stackoverflow.com/questions/47837607/creating-a-transitions-matrix-for-markov-model-in-r
- https://stackoverflow.com/questions/4904972/convert-igraph-object-to-a-data-frame-in-r
- https://stackoverflow.com/questions/49095518/more-efficient-way-to-run-a-random-walk-on-a-transition-matrix-than-the-igraph
- https://stats.stackexchange.com/questions/206447/how-to-create-a-random-walk-model-using-forecast-r-package
- https://stats.stackexchange.com/questions/26722/calculate-transition-matrix-markov-in-r
- https://www.biorxiv.org/content/10.1101/106369v1.full
- https://www.datascienceontology.org/
- https://www.mosaicdatascience.com/blogs/ontology-101-part-1-what-is-an-ontology/
- https://www.mosaicdatascience.com/blogs/ontology-101-part-2-a-practical-application-of-an-ontology/
- https://www.r-bloggers.com/a-plot-of-250-random-walks/
- https://www.rdocumentation.org/packages/sna/versions/2.3-2/topics/gplot.layout
- https://www.sciencedirect.com/topics/mathematics/transition-probability-matrix
- https://www.stat.auckland.ac.nz/~ihaka/downloads/Waikato-WRUG.pdf
- https://www.w3.org/wiki/Good_Ontologies
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