Files in askomics/askoR
askoR - Differential Expresion Analysis using edgeR
.Rbuildignore
.Rhistory
.gitignore
DESCRIPTION
NAMESPACE
NEWS
R/AskoStats.R
R/DEanalysis.R
R/GEcorr.R
R/GEfilt.R
R/GEnorm.R
R/GOenrichment.R
R/NormCountMean.R
R/UpSetGraph.R
R/VD.R
R/asko3c.R
R/asko_start.R
R/loadData.R
R/plot_expr.R
R/plot_glimma.R
README.md
ScriptR/AskoR.R
ScriptR/AskoR_ForGalaxy.R
ScriptR/AskoR_analysis_script.R
askoR.Rproj
inst/extdata/WikiImgs/AC1vsAC2_BP_GOgraph.png
inst/extdata/WikiImgs/AC1vsAC2_CC_GOgraph.png
inst/extdata/WikiImgs/AC1vsAC2_MF_GOgraph.png
inst/extdata/WikiImgs/AC1vsAC2_Pvalue_BUBBLESgraph.png
inst/extdata/WikiImgs/AC1vsAC2_Ratio_BUBBLESgraph.png
inst/extdata/WikiImgs/AC1vsBC1-AC2vsBC2-AC3vsBC3_all.png
inst/extdata/WikiImgs/AC1vsBC1-AC2vsBC2-AC3vsBC3_allDEG.png
inst/extdata/WikiImgs/AC1vsBC1-AC2vsBC2-AC3vsBC3_down.png
inst/extdata/WikiImgs/AC1vsBC1-AC2vsBC2-AC3vsBC3_downDEG.png
inst/extdata/WikiImgs/AC1vsBC1-AC2vsBC2-AC3vsBC3_mixedDEG.png
inst/extdata/WikiImgs/AC1vsBC1-AC2vsBC2-AC3vsBC3_up.png
inst/extdata/WikiImgs/AC1vsBC1-AC2vsBC2-AC3vsBC3_upDEG.png
inst/extdata/WikiImgs/AC1vsBC1-AC2vsBC2_mixed.png
inst/extdata/WikiImgs/AC3vsBC3_MeanDifference_of_ExpressionData.png
inst/extdata/WikiImgs/AC3vsBC3_VolcanoPlot.png
inst/extdata/WikiImgs/AC3vsBC3_topDGE_heatmap.png
inst/extdata/WikiImgs/Barplot_logcpm_after_filtering.png
inst/extdata/WikiImgs/Barplot_logcpm_before_filtering.png
inst/extdata/WikiImgs/Boxplot_logcpm_after_filtering.png
inst/extdata/WikiImgs/Boxplot_logcpm_after_norm.png
inst/extdata/WikiImgs/Boxplot_logcpm_before_filtering.png
inst/extdata/WikiImgs/Boxplots_ScaledCPM_WithNonDEgenes_kmeans_clr.png
inst/extdata/WikiImgs/Boxplots_ScaledCPM_kmeans_clr.png
inst/extdata/WikiImgs/ClusterProbabilities_kmeans_clr_Threshold0.8.png
inst/extdata/WikiImgs/Correlogram.png
inst/extdata/WikiImgs/DensityGraph_FilteredData.png
inst/extdata/WikiImgs/DensityGraph_FilteredData_1.png
inst/extdata/WikiImgs/DensityGraph_RawData.png
inst/extdata/WikiImgs/DensityGraph_RawData_1.png
inst/extdata/WikiImgs/First25genes_Complete_heatmap.png
inst/extdata/WikiImgs/First25genes_WithClust_Complete_heatmap.png
inst/extdata/WikiImgs/First25genes_WithClust_Subset_heatmap.png
inst/extdata/WikiImgs/GOEnrichment_kmeans_clr_Cluster_3_BP.png
inst/extdata/WikiImgs/GOEnrichment_kmeans_clr_Cluster_3_CC.png
inst/extdata/WikiImgs/GOEnrichment_kmeans_clr_Cluster_3_MF.png
inst/extdata/WikiImgs/GenesInContrasts_kmeans_clr_Cluster_3.png
inst/extdata/WikiImgs/Heatmap_CPMcounts_per_sample.png
inst/extdata/WikiImgs/Heatmap_CPMmean_per_condition.png
inst/extdata/WikiImgs/Heatmap_ScaledCPM_WithNonDEgenes_kmeans_clr.png
inst/extdata/WikiImgs/Heatmap_ScaledCPM_kmeans_clr.png
inst/extdata/WikiImgs/MDS_corr_axe1_2.png
inst/extdata/WikiImgs/MeanDifference_of_ExpressionData.png
inst/extdata/WikiImgs/PCA_axe1_2.png
inst/extdata/WikiImgs/Ratio_BUBBLESgraph_kmeans_clr_Cluster_3.png
inst/extdata/WikiImgs/ScaledExpression_kmeans_clr_Cluster_3.png
inst/extdata/WikiImgs/TopDGE_heatmap.png
inst/extdata/WikiImgs/UpSet_kmeans_clr_Cluster_3.png
inst/extdata/WikiImgs/VolcanoPlot.png
inst/extdata/input/Contrasts.txt
inst/extdata/input/CountsMatrix.txt
inst/extdata/input/GO_annotations.txt
inst/extdata/input/Genes_annotations.txt
inst/extdata/input/Samples.txt
inst/extdata/input/Samples_CountsFiles.txt
inst/extdata/input/Samples_CountsMatrix.txt
inst/extdata/input/counts.zip
man/AskoStats.Rd
man/Asko_start.Rd
man/DEanalysis.Rd
man/GEcorr.Rd
man/GEfilt.Rd
man/GEnorm.Rd
man/GOenrichment.Rd
man/NormCountsMean.Rd
man/UpSetGraph.Rd
man/VD.Rd
man/asko3c.Rd
man/loadData.Rd
man/plot_expr.Rd
man/plot_glimma.Rd
vignettes/parametersTable.R
vignettes/parametersTable.Rmd
vignettes/parametersTable.html
vignettes/userGuide.R
vignettes/userGuide.Rmd
vignettes/userGuide.html
