TDARACNE: Network reverse engineering from time course data.

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To infer gene networks from time-series measurements is a current challenge into bioinformatics research area. In order to detect dependencies between genes at different time delays, we propose an approach to infer gene regulatory networks from time-series measurements starting from a well known algorithm based on information theory. The proposed algorithm is expected to be useful in reconstruction of small biological directed networks from time course data.

Author
Zoppoli P.,Morganella S., Ceccarelli M.
Date of publication
None
Maintainer
Zoppoli Pietro <zoppoli.pietro@gmail.com>
License
GPL-2
Version
1.24.0

View on Bioconductor

Man pages

bootstrap
bootstrap
CalcMI_time2
CalcMI_time2
dataIRMAoff
dataIRMAoff
dataIRMAon
dataIRMAon
dataSOSmean
dataSOSmean
dataYeast
dataYeast
DPI2_TDAracne
DPI2_TDAracne
DPI_TDAracne
DPI_TDAracne
IcEfx
IcEfx
MItimeIcE2
MItimeIcE2
MItimeThreshperm2
MItimeThreshperm2
PercentileC
PercentileC
plotRgraphviz
plotRgraphviz
RangeRank2
RangeRank2
saveTime
saveTime
TDARACNE
TDARACNE
TDARACNEdataPublished
TDARACNEdataPublished
threshIRMAon
threshIRMAon
threshSOSmean
threshSOSmean
threshYeast
threshYeast
ToTheGraph_timeShiftmax2
ToTheGraph_timeShiftmax2

Files in this package

TDARACNE/.BBSoptions
TDARACNE/DESCRIPTION
TDARACNE/NAMESPACE
TDARACNE/R
TDARACNE/R/CalcMI_time2.R
TDARACNE/R/DPI2_TDAracne.R
TDARACNE/R/DPI_TDAracne.R
TDARACNE/R/IcEfx.R
TDARACNE/R/MItimeIcE2.R
TDARACNE/R/MItimeThreshperm2.R
TDARACNE/R/PercentileC.R
TDARACNE/R/RangeRank2.R
TDARACNE/R/TDARACNE.R
TDARACNE/R/TDARACNEdataPublished.R
TDARACNE/R/ToTheGraph_timeShiftmax2.R
TDARACNE/R/bootstrap.R
TDARACNE/R/plotRgraphviz.R
TDARACNE/R/saveTime.R
TDARACNE/build
TDARACNE/build/vignette.rds
TDARACNE/data
TDARACNE/data/dataIRMAoff.rda
TDARACNE/data/dataIRMAon.rda
TDARACNE/data/dataSOSmean.rda
TDARACNE/data/dataYeast.rda
TDARACNE/data/threshIRMAon.rda
TDARACNE/data/threshSOSmean.rda
TDARACNE/data/threshYeast.rda
TDARACNE/inst
TDARACNE/inst/CITATION.txt
TDARACNE/inst/NEWS.txt
TDARACNE/inst/doc
TDARACNE/inst/doc/TDARACNE.R
TDARACNE/inst/doc/TDARACNE.Rnw
TDARACNE/inst/doc/TDARACNE.pdf
TDARACNE/man
TDARACNE/man/CalcMI_time2.Rd
TDARACNE/man/DPI2_TDAracne.Rd
TDARACNE/man/DPI_TDAracne.Rd
TDARACNE/man/IcEfx.Rd
TDARACNE/man/MItimeIcE2.Rd
TDARACNE/man/MItimeThreshperm2.Rd
TDARACNE/man/PercentileC.Rd
TDARACNE/man/RangeRank2.Rd
TDARACNE/man/TDARACNE.Rd
TDARACNE/man/TDARACNEdataPublished.Rd
TDARACNE/man/ToTheGraph_timeShiftmax2.Rd
TDARACNE/man/bootstrap.Rd
TDARACNE/man/dataIRMAoff.Rd
TDARACNE/man/dataIRMAon.Rd
TDARACNE/man/dataSOSmean.Rd
TDARACNE/man/dataYeast.Rd
TDARACNE/man/plotRgraphviz.Rd
TDARACNE/man/saveTime.Rd
TDARACNE/man/threshIRMAon.Rd
TDARACNE/man/threshSOSmean.Rd
TDARACNE/man/threshYeast.Rd
TDARACNE/vignettes
TDARACNE/vignettes/TDARACNE.Rnw
TDARACNE/vignettes/TDARACNE.bib