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wyguo / ThreeDRNAseq

A pipeline for differential expression and differential alternative splicing analysis
https://github.com/wyguo/ThreeDRNAseq
GNU General Public License v3.0
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[Help] #24

Open amitpande74 opened 4 years ago

amitpande74 commented 4 years ago

Hi , when I run the DE analysis, i get an error in the log files: Run DE gene analysis -> Done!!! (2020-05-27 10:38:05)

Generate deltaPS ... (click "x" to close) (2020-05-27 10:38:05) Generate deltaPS -> Done!!! (2020-05-27 10:38:05)

Run DAS gene, DE and DTU transcript analysis ... (click "x" to close) (2020-05-27 10:38:05)

Limma-voon to estimate mean-vriance trend ... Fit a basic linear model ... Fit the contrast model ... [1] "Contrast groups: ctrl.human-PE.human" Fit a eBayes model ... Testing for each contrast group ... Testing across all contrast groups ... Fit a splicing model ... Total number of exons: 60383 Total number of genes: 15361 Number of genes with 1 exon: 4755 Mean number of exons in a gene: 4 Max number of exons in a gene: 54 Time for analysis: 7.611 Done!!!
Run DAS gene, DE and DTU transcript analysis -> Done!!! (2020-05-27 10:38:13)

Plot DE gene up- and down-regulation bar plot. ... (click "x" to close) (2020-05-27 10:38:14) Plot DE gene up- and down-regulation bar plot. -> Done!!! (2020-05-27 10:38:14)

3D statistics table (2020-05-27 10:38:14) Warning: Error in unit: 'x' and 'units' must have length > 0 197: stop 196: unit 195: grid::polygonGrob 193: setup_grobs 192: plot.euler 189: plotEulerDiagram [R/plot.3D.R#519] 188: FUN [source/server/server_ddd.R#1238] 187: lapply 185: [source/server/server_ddd.R#1232] 183: .func 180: contextFunc 179: env$runWith 172: ctx$run 171: self$.updateValue 169: g.across.contrast 168: renderPlot [source/server/server_ddd.R#1249] 166: func 126: drawPlot 112: 96: drawReactive 83: origRenderFunc 82: output$DE.genes.euler 2: shiny::runApp 1: run3DApp [R/run3DApp.R#16] 3D numbers in contrast groups (2020-05-27 10:38:14) DE vs DAS gene table (2020-05-27 10:38:14) DE vs DAS gene Euler plot (2020-05-27 10:38:14) DE vs DTU transcript table (2020-05-27 10:38:14)