NTW: Predict gene network using an Ordinary Differential Equation (ODE) based method

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This package predicts the gene-gene interaction network and identifies the direct transcriptional targets of the perturbation using an ODE (Ordinary Differential Equation) based method.

Author
Wei Xiao, Yin Jin, Darong Lai, Xinyi Yang, Yuanhua Liu, Christine Nardini
Date of publication
None
Maintainer
Yuanhua Liu <liuyuanhua@picb.ac.cn>
License
GPL-2
Version
1.24.0

View on Bioconductor

Man pages

A.estimation.Srow
Estimation of a single row in matrix A with the perturbation...
AP.estimation.Srow
Estimation of a single row in gene interaction matrix A and...
comb.matrix
Create all combinations of vectors
methods.regression
Regression methods to estimate a single row in A with fixed...
NTW
Estimation of gene interaction matrix A and perturbation...
NTW-package
Gene interaction network and perturbation targets predictions
patterns.priorA
Approaches to use a priori known gene association information...
P.preestimation
Pre-estimation of the transcriptional pertubation targets...
sos.data
SOS pathway perturbation data

Files in this package

NTW/DESCRIPTION
NTW/NAMESPACE
NTW/R
NTW/R/A.estimation.Srow.R
NTW/R/AP.estimation.Srow.R
NTW/R/NTW.R
NTW/R/P.preestimation.R
NTW/R/backward.R
NTW/R/comb.matrix.R
NTW/R/forward.R
NTW/R/method.geo.R
NTW/R/method.ml.R
NTW/R/method.sse.R
NTW/build
NTW/build/vignette.rds
NTW/data
NTW/data/sos.data.rda
NTW/inst
NTW/inst/NEWS
NTW/inst/doc
NTW/inst/doc/NTW.R
NTW/inst/doc/NTW.Rnw
NTW/inst/doc/NTW.pdf
NTW/man
NTW/man/A.estimation.Srow.Rd
NTW/man/AP.estimation.Srow.Rd
NTW/man/NTW-package.Rd
NTW/man/NTW.Rd
NTW/man/P.preestimation.Rd
NTW/man/comb.matrix.Rd
NTW/man/methods.regression.Rd
NTW/man/patterns.priorA.Rd
NTW/man/sos.data.Rd
NTW/vignettes
NTW/vignettes/Addendum.bib
NTW/vignettes/NTW.Rnw
NTW/vignettes/NTWfunctions.jpg