iGC: An integrated analysis package of Gene expression and Copy number alteration

This package is intended to identify differentially expressed genes driven by Copy Number Alterations from samples with both gene expression and CNA data.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("iGC")
AuthorYi-Pin Lai [aut], Liang-Bo Wang [aut, cre], Tzu-Pin Lu [aut], Eric Y. Chuang [aut]
Bioconductor views AssayDomain Biological Question CopyNumberVariation DifferentialExpression GeneExpression Genetics GenomicVariation Microarray MultipleComparison ResearchField Sequencing Software Technology WorkflowStep
Date of publicationNone
MaintainerLiang-Bo Wang <r02945054@ntu.edu.tw>
LicenseGPL-2
Version1.6.0
http://github.com/ccwang002/iGC

View on Bioconductor

Files

DESCRIPTION
NAMESPACE
R
R/create_gene_exp.R R/create_sample_desc.R R/data_hg19DBNM.R R/direct_gene_cna.R R/faster_gene_cna.R R/find_cna_driven_gene.R R/iGC.R
build
build/vignette.rds
data
data/hg19DBNM.rda
inst
inst/CITATION
inst/NEWS.Rd
inst/doc
inst/doc/Introduction.R
inst/doc/Introduction.Rmd
inst/doc/Introduction.html
inst/extdata
inst/extdata/CNA
inst/extdata/CNA/A04_697150.hg19.txt
inst/extdata/CNA/A05_697032.hg19.txt
inst/extdata/CNA/A07_697200.hg19.txt
inst/extdata/CNA/A09_697146.hg19.txt
inst/extdata/CNA/B01_697160.hg19.txt
inst/extdata/CNA/B03_697186.hg19.txt
inst/extdata/CNA/B05_697036.hg19.txt
inst/extdata/CNA/B07_697190.hg19.txt
inst/extdata/CNA/B08_697166.hg19.txt
inst/extdata/CNA/B10_697116.hg19.txt
inst/extdata/CNA/B11_697062.hg19.txt
inst/extdata/CNA/C01_697154.hg19.txt
inst/extdata/CNA/C02_697152.hg19.txt
inst/extdata/CNA/C03_707088.hg19.txt
inst/extdata/CNA/C04_697074.hg19.txt
inst/extdata/CNA/C06_697142.hg19.txt
inst/extdata/GE
inst/extdata/GE/US82800149_251976012154_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012155_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012200_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012204_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012205_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012210_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012261_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012263_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012264_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012483_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012487_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012503_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012504_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012510_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012512_S01.tcga_level3.txt
inst/extdata/GE/US82800149_251976012517_S01.tcga_level3.txt
inst/extdata/sample_desc.csv
man
man/create_gene_cna.Rd man/create_gene_exp.Rd man/create_sample_desc.Rd man/direct_gene_cna.Rd man/find_cna_driven_gene.Rd man/hg19DBNM.Rd man/iGC.Rd
vignettes
vignettes/Introduction.Rmd
vignettes/pics
vignettes/pics/analysis_workflow.png

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.