DCGL: Differential Co-expression Analysis and Differential Regulation Analysis of Gene Expression Microarray Data
Version 2.1.2

Functions for 1) gene filtration; 2) link filtration; 3) differential co-expression analysis: DCG (Differential Coexpressed Gene) identification and DCL (Differentially Coexpressed Link) identification; and 4) differential regulation analysis: DRG (Differential Regulated Gene) identification, DRL (Differential Regulated Link) identification, DRL visualization and regulator ranking.

Browse man pages Browse package API and functions Browse package files

AuthorJing Yang, Hui Yu, Bao-Hong Liu, Zhongming Zhao, Lei Liu, Liang-Xiao Ma, Yi-Xue Li, Yuan-Yuan Li
Date of publication2014-12-18 07:06:56
MaintainerBao-Hong Liu <bhliu@scbit.org>
LicenseGPL (> 2)
Version2.1.2
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("DCGL")

Man pages

ASC: Identify DCGs (Differential Coexpressed Genes) based on...
DCe: Identify DCGs (Differentially Coexpressed Genes) and DCLs...
DCGL-package: Differential Co-expression Analysis and Differential...
DCp: Identify DCGs (Differential Coexpressed Genes) based on the...
DCsum: Summarize DCGs and DCLs
DRplot: Visualization of DRLs
DRrank: Ranking Regulators by Target Enrichment Density (TED) and...
DRsort: Identify DRGs (Differential regulated Genes) and DRLs...
expressionBasedfilter: Filter genes according to expression level
exprs: Real dataset pulled down from GEO...
exprs_design: Experiment design of microarray matrix data
intgenelist: Interesting genes list
LFC: Select DCLs based on 'Limit Fold Change' model
LRC: Identify DCGs (Differential Coexpressed genes) based on 'Log...
percentLinkfilter: Filter gene coexpression links according to the top percent...
qLinkfilter: Filter gene coexpression links according to the q-values of...
RIF: Ranking Regulators by Regulator Impact Factor (RIF) Method
rLinkfilter: Filter gene coexpression links according to correlation...
tf2target: The dataset of human Transcription Factors regulate potential...
varianceBasedfilter: To filter genes according to expression variability
WGCNA: Identify DCGs (Differential Coexpressed Genes) based on the...

Functions

ASC Man page
DCGL Man page
DCGL-package Man page
DCL.connect.DCG Source code
DCe Man page
DCp Man page
DCsum Man page
DRplot Man page
DRrank Man page
DRsort Man page
LFC Man page
LRC Man page
RIF Man page
TDDscore Source code
TEDscore Source code
WGCNA Man page
expressionBasedfilter Man page
exprs Man page
exprs_design Man page
intgenelist Man page
percentLinkfilter Man page
qLinkfilter Man page
rLinkfilter Man page
tf2target Man page
tf2target.random Source code
varianceBasedfilter Man page
visTF2target_DCL Source code
visTF_bridged_DCL Source code

Files

NAMESPACE
data
data/exprs_design.txt.gz
data/intgenelist.RData
data/tf2target.txt.gz
data/tf2target.RData
data/datalist
data/exprs.RData
data/exprs.txt.gz
data/exprs_design.RData
data/intgenelist.txt.gz
R
R/DCGL.r
MD5
DESCRIPTION
man
man/tf2target.Rd
man/DCp.Rd
man/ASC.Rd
man/DRsort.Rd
man/LFC.Rd
man/qLinkfilter.Rd
man/DRplot.Rd
man/rLinkfilter.Rd
man/expressionBasedfilter.Rd
man/WGCNA.Rd
man/intgenelist.Rd
man/DRrank.Rd
man/LRC.Rd
man/exprs.Rd
man/DCGL-package.Rd
man/exprs_design.Rd
man/DCe.Rd
man/RIF.Rd
man/DCsum.Rd
man/percentLinkfilter.Rd
man/varianceBasedfilter.Rd
DCGL documentation built on May 19, 2017, 8:25 a.m.