Files in jtcasemajor/CPRD
Comparison of DEG and coexpression tools
.Rproj.user/2B08D28D/pcs/debug-breakpoints.pper
.Rproj.user/2B08D28D/pcs/files-pane.pper
.Rproj.user/2B08D28D/pcs/packages-pane.pper
.Rproj.user/2B08D28D/pcs/source-pane.pper
.Rproj.user/2B08D28D/pcs/windowlayoutstate.pper
.Rproj.user/2B08D28D/pcs/workbench-pane.pper
.Rproj.user/2B08D28D/persistent-state
.Rproj.user/2B08D28D/rmd-outputs
.Rproj.user/2B08D28D/saved_source_markers
.Rproj.user/2B08D28D/sources/per/t/05D0070D
.Rproj.user/2B08D28D/sources/per/t/05D0070D-contents
.Rproj.user/2B08D28D/sources/per/t/ADEB0196
.Rproj.user/2B08D28D/sources/per/t/ADEB0196-contents
.Rproj.user/2B08D28D/sources/per/t/C4C42525
.Rproj.user/2B08D28D/sources/per/t/C4C42525-contents
.Rproj.user/2B08D28D/sources/per/t/F871986C
.Rproj.user/2B08D28D/sources/per/t/F871986C-contents
.Rproj.user/2B08D28D/sources/prop/220E1D07
.Rproj.user/2B08D28D/sources/prop/5A873079
.Rproj.user/2B08D28D/sources/prop/5AE8C1F0
.Rproj.user/2B08D28D/sources/prop/6C043D61
.Rproj.user/2B08D28D/sources/prop/6E6DF9E2
.Rproj.user/2B08D28D/sources/prop/9ACA6E4E
.Rproj.user/2B08D28D/sources/prop/B8FB2D6F
.Rproj.user/2B08D28D/sources/prop/INDEX
.Rproj.user/shared/notebooks/patch-chunk-names
.Rproj.user/shared/notebooks/paths
CPRD.Rproj
DESCRIPTION
GEOlimma/DE_source.R
GEOlimma/ebayesGEO.R
NAMESPACE
NAPPA_2.0.tar.gz
R/CoExpression.R
R/DEG.R
R/Normalization.R
R/Simulation.R
R/Visualization.R
README
data/Data_Nanotring.rda
data/GEOlimma_probabilities.rda
data/NANOSTRING/GSE146204_RAW/GSM4368110_20180911_31020775256_4561_06.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368111_20190503_21020_85349_02.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368112_20190913_p5364433_p53_DRE-1_01.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368113_20190913_p5364433_p53_DRE-2_02.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368114_20190913_p5364433_p53_DRE-3_03.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368115_20190913_p5364433_p53_DRE-4_04.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368116_20190913_p5364433_p53_DRE-5_05.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368117_20190913_p5364433_p53_DRE-6_06.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368118_20190913_p5364433_p53_DRE-7_07.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368119_20190913_p5364433_p53_DRE-8_08.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368120_20190913_p5364433_p53_DRE-9_09.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368121_20190913_p5364433_p53_DRE-10_10.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368122_20190913_p5364433_p53_DRE-11_11.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368123_20190913_p5364433_p53_DRE-12_12.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368124_20190917_p5364432_p53_DRE-13_01.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368125_20190917_p5364432_p53_DRE-14_02.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368126_20190917_p5364432_p53_DRE-15_03.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368127_20190917_p5364432_p53_DRE-16_04.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368128_20190917_p5364432_p53_DRE-17_05.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368129_20190917_p5364432_p53_DRE-18_06.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368130_20190917_p5364432_p53_DRE-19_07.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368131_20190917_p5364432_p53_DRE-20_08.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368132_20190917_p5364432_p53_DRE-21_09.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368133_20190917_p5364432_p53_DRE-22_10.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368134_20190917_p5364432_p53_DRE-23_11.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368135_20190917_p5364432_p53_DRE-24_12.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368136_20190918_p5364430_p53_DRE-25_01.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368137_20190918_p5364430_p53_DRE-26_02.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368138_20190918_p5364430_p53_DRE-27_03.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368139_20190918_p5364430_p53_DRE-28_04.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368140_20190918_p5364430_p53_DRE-29_05.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368141_20190918_p5364430_p53_DRE-30_06.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368142_20190918_p5364430_p53_DRE-31_07.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368143_20190918_p5364430_p53_DRE-32_08.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368144_20190918_p5364430_p53_DRE-33_09.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368145_20190918_p5364430_p53_DRE-34_10.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368146_20190918_p5364430_p53_DRE-35_11.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368147_20190918_p5364430_p53_DRE-36_12.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368148_20200130_MG_1220_p23_dre37_01.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368149_20200130_MG_1220_p23_dre38_02.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368150_20200130_MG_1220_p23_dre39_03.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368151_20200130_MG_1220_p23_dre40_04.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368152_20180911_31020775256_3536_01.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368153_20180911_31020775256_3807_02.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368154_20180911_31020775256_3864_03.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368155_20180911_31020775256_3870_04.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368156_20180911_31020775256_3955_05.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368157_20180911_31020775256_4568_07.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368158_20180911_31020775256_4571_08.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368159_20180911_31020775256_4572_09.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368160_20180911_31020775256_4603_10.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368161_20180911_31020775256_4604_11.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368162_20180911_31020775256_4606_12.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368163_20190503_21020_8224_09.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368164_20190503_21020_70258_05.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368165_20190503_21020_79133_08.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368166_20190503_21020_79474_06.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368167_20190503_21020_81077_07.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368168_20190503_21020_81378_11.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368169_20190503_21020_82750_10.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368170_20190503_21020_84307_04.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368171_20190503_21020_84315_03.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368172_20190503_21020_85806_12.RCC
data/NANOSTRING/GSE146204_RAW/GSM4368173_20190503_21020_86697_01.RCC
data/NANOSTRING/NanoNormNappa.csv
data/NANOSTRING/Nanostring_Data.rds
data/NANOSTRING/README.md
demo/Main.R
demo/setup.R
man/Cor.square.matrix.Rd
man/DEG_GEOlimma.Rd
man/DEG_alternative.Rd
man/DEG_limma.Rd
man/Make.adjacency.table.Rd
man/Make.adjacencyPVal.Rd
man/Make.df.graph.Rd
man/Make.full.adjacency.Rd
man/PCA_tools.Rd
man/Simul.data.Rd
man/TOM.square.matrix.Rd
man/Upset.Binary.Dataframe.Rd
man/make_designMatrix.Rd
man/relations.comparison.Rd
man/tools.DEG.Microarrays.Rd
man/tools.DEG.Microarrays.merge.Rd
man/tools.DEG.Nanostring.Rd
man/tools.DEG.Nanostring.merge.Rd
man/tools.DEG.RNAseq.Rd
man/tools.DEG.RNAseq.merge.Rd
man/tools.norm.Nanostring.Rd
man/wilcoxDEG.Rd
nanoR/DESCRIPTION
nanoR/NAMESPACE
nanoR/R/Hello.md
nanoR/R/analysis_report.Rmd
nanoR/R/dendrogram.R
nanoR/R/distanceRatio.R
nanoR/R/groupedBoxplot.R
nanoR/R/heatmap.R
nanoR/R/hello.R
nanoR/R/limma_analysis.R
nanoR/R/normDistanceRatio.R
nanoR/R/normalization.R
nanoR/R/parse_rcc.R
nanoR/R/pca.R
nanoR/R/quality_control.R
nanoR/R/renderReport.R
nanoR/R/t_test_analysis.R
nanoR/R/util.R
nanoR/R/volcanoPlot.R
nanoR/README.md
nanoR/man/calcDELimma.Rd
nanoR/man/calcFCs.Rd
nanoR/man/calcStudentPvals.Rd
nanoR/man/distanceRatio.Rd
nanoR/man/geneLogFC.Rd
nanoR/man/generateGroupVectors.Rd
nanoR/man/geo.mean.Rd
nanoR/man/getCV.Rd
nanoR/man/hello.Rd
nanoR/man/housekeepingCorrelation.Rd
nanoR/man/nsBackgroundCorrect.Rd
nanoR/man/nsNormalize.Rd
nanoR/man/nsPositiveControlNormalization.Rd
nanoR/man/parseRCC.Rd
nanoR/man/performTAnalysis.Rd
nanoR/man/plotBackgrund.Rd
nanoR/man/plotBindingDensities.Rd
nanoR/man/plotDendrogram.Rd
nanoR/man/plotDistanceRatio.Rd
nanoR/man/plotFOV.Rd
nanoR/man/plotGroupBoxplot.Rd
nanoR/man/plotHeatmapExpression.Rd
nanoR/man/plotHousekeepingGenes.Rd
nanoR/man/plotNormDistanceRatio.Rd
nanoR/man/plotNormFactors.Rd
nanoR/man/plotPCA.Rd
nanoR/man/plotPCAheatmap.Rd
nanoR/man/plotPositiveScalingFactors.Rd
nanoR/man/positiveControlR2.Rd
nanoR/man/readSingleRCC.Rd
nanoR/man/removeAnnot.Rd
nanoR/man/removeNonExpressed.Rd
nanoR/man/renderReport.Rd
nanoR/man/topGenesCorrelation.Rd
nanoR/man/volcanoPlot.Rd
