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Infotheo specifications

Information


Unique identifier OMICS_25839
Name Infotheo
Alternative names Information-Theoretic Measures, MASSIVE
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.2.0
Stability Stable
Maintained Yes

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Versioning


No version available

Documentation


Maintainers


  • person_outline Patrick Meyer
  • person_outline Gianluca Bontempi
  • person_outline Patrick Meyer
  • person_outline Colas Schretter

Additional information


https://github.com/cran/infotheo

Publication for Information-Theoretic Measures

Infotheo citations

 (10)
library_books

Ancient Evolution and Dispersion of Human Papillomavirus 58 Variants

2017
J Virol
PMCID: 5640864
PMID: 28794033
DOI: 10.1128/JVI.01285-17

[…] s using MI computation was applied to examine the strength of the association between two variations (). The pairwise MI indexes were calculated by using the mutinformation function in the R package “infotheo.” A higher MI value indicates greater agreement between two compared sites. […]

library_books

Systems analysis of cis regulatory motifs in C4 photosynthesis genes using maize and rice leaf transcriptomic data during a process of de etiolation

2016
J Exp Bot
PMCID: 5014158
PMID: 27436282
DOI: 10.1093/jxb/erw275

[…] its paralogs was regarded as the C4 isoform. Multiple methods including Euclidean distance between expression curves, rank correlation, and mutual information (http://cran.r-project.org/web/packages/infotheo/index.html) were used to measure the level of similarities and differences in the expression patterns between maize genes and their corresponding rice orthologous genes. […]

library_books

Information Thermodynamics of Cytosine DNA Methylation

2016
PLoS One
PMCID: 4786201
PMID: 26963711
DOI: 10.1371/journal.pone.0150427

[…] tion would be linked to a specific epigenetic response.Alternative information-theoretical measures can be applied to estimate divergence between methylation levels from two samples. Three additional information-theoretic measures were considered: Total-variation (TV), Kullback–Leibler (KL) and Hellinger (HD) divergences. TV is the absolute value of the difference of methylation levels. KL gives t […]

library_books

Playing 20 Questions with the Mind: Collaborative Problem Solving by Humans Using a Brain to Brain Interface

2015
PLoS One
PMCID: 4580467
PMID: 26398267
DOI: 10.1371/journal.pone.0137303

[…] and R, with every single answer c in C and r in R coded as 1 for “Yes” and “0” for “No”, and then using the following formula: MI(C,R) = ∑c∈[0,1]∑r∈[0,1]log(p(c,r)p(c)p(r)) MI was computed using the Infotheo package []. Because MI ranges between 0 and 1 and is calculated in natural logarithms, the actual number of bits transferred is calculated by first converting the MI value into the correspond […]

library_books

Theme and variations: evolutionary diversification of the HET s functional amyloid motif

2015
Sci Rep
PMCID: 4518210
PMID: 26219477
DOI: 10.1038/srep12494

[…] quence logo was generated by weblogo 2.8.Correlations (Pearson’s r) of formal charges were calculated for pairs of positions such that mutual information exceeded 0.1 nats, using R packages Hmisc and infotheo. Only correlations with p-values below 10−3 were considered as significant. Residue-residue co-variations were predicted by web-server Gremlin v2 (http://openseq.org/gremlin_faq.php) without […]

library_books

Quantifying the effects of social influence

2013
Sci Rep
PMCID: 3584930
PMID: 23449043
DOI: 10.1038/srep01360

[…] 9). Finally to estimate , we used the standard lm function with robust standard errors calculated by hccm (package car, version 2.0-12). Mutual information was computed with multiinformation (package infotheo, version 1.1.0). […]

Citations

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Infotheo institution(s)
Machine Learning Group, Computer Science Department, Université Libre de Bruxelles, Brussels, Belgium

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