TFMPvalue: Efficient and Accurate P-Value Computation for Position Weight Matrices

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In putative Transcription Factor Binding Sites (TFBSs) identification from sequence/alignments, we are interested in the significance of certain match score. TFMPvalue provides the accurate calculation of P-value with score threshold for Position Weight Matrices, or the score with given P-value. This package is an interface to code originally made available by Helene Touzet and Jean-Stephane Varre, 2007, Algorithms Mol Biol:2, 15.

Author
Ge Tan <ge.tan09@imperial.ac.uk>
Date of publication
2015-11-29 19:19:46
Maintainer
Ge Tan <ge.tan09@imperial.ac.uk>
License
GPL-2
Version
0.0.6
URLs

View on CRAN

Man pages

TFMPvalue-lazyScore
Compute the score from P-value.
TFMPvalue-package
Efficient and accurate P-value computation for Position...
TFMPvalue-pv2sc
Compute score from P-value.
TFMPvalue-sc2pv
Compute P-value from score.

Files in this package

TFMPvalue
TFMPvalue/inst
TFMPvalue/inst/TFMPvalueBuild
TFMPvalue/inst/TFMPvalueBuild/build.R
TFMPvalue/tests
TFMPvalue/tests/testthat
TFMPvalue/tests/testthat/test_pv2sc.R
TFMPvalue/tests/testthat/test_sc2pv.R
TFMPvalue/tests/testthat/test_lazyScore.R
TFMPvalue/src
TFMPvalue/src/ArgumentException.h
TFMPvalue/src/FileException.cpp
TFMPvalue/src/Matrix.cpp
TFMPvalue/src/TFMMain.cpp
TFMPvalue/src/Matrix.h
TFMPvalue/src/ArgumentException.cpp
TFMPvalue/src/ParseException.cpp
TFMPvalue/src/FileException.h
TFMPvalue/src/TFMpvalue.cpp
TFMPvalue/src/TFMpvalue.h
TFMPvalue/src/ParseException.h
TFMPvalue/NAMESPACE
TFMPvalue/R
TFMPvalue/R/TFMPvalue-lazyScore.R
TFMPvalue/R/util.R
TFMPvalue/R/TFMPvalue-pv2sc.R
TFMPvalue/R/TFMPvalue-sc2pv.R
TFMPvalue/MD5
TFMPvalue/DESCRIPTION
TFMPvalue/man
TFMPvalue/man/TFMPvalue-lazyScore.Rd
TFMPvalue/man/TFMPvalue-sc2pv.Rd
TFMPvalue/man/TFMPvalue-pv2sc.Rd
TFMPvalue/man/TFMPvalue-package.Rd