directPA: Direction Analysis for Pathways and Kinases

Direction analysis is a set of tools designed to identify combinatorial effects of multiple treatments and/or perturbations on pathways and kinases profiled by microarray, RNA-seq, proteomics, or phosphoproteomics data.

Author
Pengyi Yang & Ellis Patrick
Date of publication
2016-03-23 22:50:28
Maintainer
Pengyi Yang <yangpy7@gmail.com>
License
GPL-3
Version
1.3

View on CRAN

Man pages

directExplorer2d
Batch Direction Analysis in 2-dimentional space
directPA
Direction Analysis for Pathways
directPA-package
Direction Pathway Analysis Package
geneStats
Molecule Level Statistics
HEK
Phosphoproteomics of HEK-293E
kinasePA
Direction Analysis for Kinases
Pathways.KEGG
KEGG pathway annotations
Pathways.reactome
Reactome pathway annotations
pathwayStats
Pathway Level Statistics
perturbPlot2d
Perturbation Plot
PhosphoELM.human
PhosphoELM annotations for human
PhosphoELM.mouse
PhosphoELM annotations for mouse
PhosphoSite.human
PhosphoSitePlus annotations for human
PhosphoSite.mouse
PhosphoSitePlus annotations for mouse
PM
Plasma Membrame Protoemics Data
rotate2d
Polar Coordinates Rotation
rotate3d
Spherical Coordinates Rotation

Files in this package

directPA
directPA/NAMESPACE
directPA/data
directPA/data/PM.rda
directPA/data/Pathways.rda
directPA/data/PhosphoELM.rda
directPA/data/HEK.rda
directPA/data/PhosphoSite.rda
directPA/R
directPA/R/directExplorer2d.R
directPA/R/rotate3d.R
directPA/R/perturbPlot2d.R
directPA/R/kinasePA.R
directPA/R/rotate2d.R
directPA/R/geneStats.R
directPA/R/directPA.R
directPA/R/pathwayStats.R
directPA/README.md
directPA/MD5
directPA/DESCRIPTION
directPA/man
directPA/man/PhosphoELM.human.Rd
directPA/man/directPA-package.Rd
directPA/man/Pathways.KEGG.Rd
directPA/man/HEK.Rd
directPA/man/pathwayStats.Rd
directPA/man/directPA.Rd
directPA/man/perturbPlot2d.Rd
directPA/man/rotate2d.Rd
directPA/man/Pathways.reactome.Rd
directPA/man/geneStats.Rd
directPA/man/PhosphoSite.human.Rd
directPA/man/PhosphoSite.mouse.Rd
directPA/man/rotate3d.Rd
directPA/man/kinasePA.Rd
directPA/man/PhosphoELM.mouse.Rd
directPA/man/PM.Rd
directPA/man/directExplorer2d.Rd