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Associated diseases

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GHOST specifications

Information


Unique identifier OMICS_04892
Name GHOST
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C++
License Apache License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for GHOST

GHOST in publications

 (5)
PMCID: 5471963
PMID: 28617222
DOI: 10.1186/s12859-017-1635-7

[…] paper we selected six existing state of the art global alignment algorithms and we tested these aligners on diffusion mri-derived brain networks. the algorithms tested here are magna++ [], netal [], ghost [], gedevo [], wave [], natalie2.0 []. the algorithms are applied to build the alignments among the diffusion mri-derived brain networks. after the alignments were built, we compared […]

PMCID: 5430463
PMID: 28424527
DOI: 10.1038/s41598-017-01085-9

[…] alignments) with a measure of similarity between their wiring patterns in the ppi networks (e.g., node degrees (numbers of neighbours of nodes in the network) for hubalign, spectral signatures for ghost, or graphlet degrees (number of small sub-graphs), for l-graal) through a balancing parameter, so that the alignment can favour using sequence similarity, or topological similarity. also, […]

PMCID: 4460690
PMID: 26060505
DOI: 10.1186/s13015-015-0050-8

[…] on state-of-the-art methods, mi-graal and isorankn, that combining ncf of one method and as of another method can give a new superior method. here, we evaluate mi-graal against a newer approach, ghost, by mixing-and-matching the methods’ ncfs and ass to potentially further improve alignment quality. while doing so, we approach important questions that have not been asked systematically thus […]

PMCID: 5270500
PMID: 28194172
DOI: 10.1186/s13637-015-0022-9

[…] appeared, whose node cost function is based on the idea of shared network neighbors rather than graphlet counts. its alignment strategy is a seed-and-extend approach., more recent and also pairwise ghost [] uses “spectral signatures” to compute node similarities. ghost’s alignment strategy is similar to mi-graal’s, except that mi-graal solves a linear assignment problem by taking into account […]

PMCID: 3996886
PMID: 24800226
DOI: 10.1155/2014/439476

[…] combinations of matching scores. nodes without alignment gaps are selected to construct a minimally connected subgraph within each network; these subgraphs are regarded as conserved patterns., the ghost alignment method [] developed by patro and kingsford uses the spectrum of the graph adjacency matrix to measure topological similarities between networks. ghost performs a global network […]


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GHOST institution(s)
Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies and Department of Computer Science, University of Maryland, College Park, MD, USA

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