Journal references & IndeCut evaluated permutations methods #70
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| Several degree-preserving network permutation strategies have been developed including | ||
| XSwap [@doi:10.1137/1.9781611972795.67], | ||
| FANMOD (Fast Network Motif Detection) [@doi:10.1093/bioinformatics/btl038], | ||
| CoMoFinder (Co-regulatory Motif Finder) [@doi:10.1093/bioinformatics/btv159], | ||
| DIA-MCIS (Diaconis Monte Carlo Importance Sampling) [@doi:10.1093/bioinformatics/btm454], | ||
| and WaRSwap (Weighted and Reverse Swap Sampling) [@doi:10.1186/gb-2013-14-8-r85]. | ||
| IndeCut proposed a method to characterize these strategies by their ability to uniformly sample from the solution space of all possible degree-preserving permutations [@doi:10.1093/bioinformatics/btx798]. |
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Following up on our conversation at #1 (comment), @dkoslicki is this a faithful description of IndeCut and its relevance to degree-preserving permutation approaches?
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Noting that the "Method S2: Description of examined network motif discovery algorithms" from the IndeCut supplement was super helpful in summarizing these methods.
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Yes, that does capture things nicely!
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AppVeyor build 1.0.61 for commit 887eb1a is now complete. Found 353 potential spelling error(s). Preview:content/00.front-matter.md:7:citablecontent/01.abstract.md:3:repurposing content/01.abstract.md:10:xswap content/02.body.md:6:hetionet content/02.body.md:7:hetionet content/02.body.md:11:Hetionet content/02.body.md:12:Hetionet content/02.body.md:12:subnetworks content/02.body.md:13:Hetionet content/02.body.md:14:Undirected content/02.body.md:19:hetionet content/02.body.md:19:xswap content/02.body.md:22:hetionet content/... |
zietzm
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