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Answer: Answer: Can log2cpm be used for proteomics data normalization?
2 days ago James W. MacDonald 65k
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Answer: Answer: Batch effect correction: methylome data
2 days ago James W. MacDonald 65k
2
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263
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Answer: Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
9 days ago James W. MacDonald 65k
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2
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433
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Answer: Answer: Extremely small p-values using Limma for proteomic data
9 days ago James W. MacDonald 65k
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155
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Answer: Answer: minfi latest update for EPIC V2 chip
9 days ago James W. MacDonald 65k
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2
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282
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Answer: Answer: Help with running egsea()
10 days ago James W. MacDonald 65k
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215
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Answer: Answer: Couldn't connect to server while using "pathways"
10 days ago James W. MacDonald 65k
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395
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Answer: Answer: limma Intercept vs No-intercept models completely changing DMR results?
13 days ago James W. MacDonald 65k
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251
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Answer: Answer: Too many significant genes when integrating gtex and tcga
13 days ago James W. MacDonald 65k
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281
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Answer: Answer: Once again a "Model matrix not full rank"
14 days ago James W. MacDonald 65k
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157
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Answer: Answer: DESeq2 v1.35.0
14 days ago James W. MacDonald 65k
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264
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Answer: Answer: Store output of matchPWM()
15 days ago James W. MacDonald 65k
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2
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283
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Answer: Answer: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
15 days ago James W. MacDonald 65k
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260
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Answer: Answer: How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
16 days ago James W. MacDonald 65k
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259
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Answer: Answer: Help with error using camera() in limma
16 days ago James W. MacDonald 65k
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1
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270
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Answer: Answer: Assist me in determining whether the analysis process using the limma package ha
17 days ago James W. MacDonald 65k
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355
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Answer: Answer: Math expression in shapeCustom legend in EnhancedVolcano
21 days ago James W. MacDonald 65k
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1
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423
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Answer: Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
21 days ago James W. MacDonald 65k
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302
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Answer: Answer: get BM error
22 days ago James W. MacDonald 65k
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258
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Answer: Answer: How to retrieve gene ontology GO class from gene list?
22 days ago James W. MacDonald 65k
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274
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Answer: Answer: Error EPICv2 ChAMP
24 days ago James W. MacDonald 65k
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136
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Answer: Answer: FDR via q-value
24 days ago James W. MacDonald 65k
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1
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321
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Answer: Answer: Error for AnnotationForge makeOrgPackageFromNCBI function
24 days ago James W. MacDonald 65k
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173
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Answer: Answer: Error retrieving ensembl gene id using biomaRt...
27 days ago James W. MacDonald 65k
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209
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Answer: Answer: OrgDb for maize
27 days ago James W. MacDonald 65k
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152
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Answer: Answer: SNP locus package for mouse?
4 weeks ago James W. MacDonald 65k
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216
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Answer: Answer: flowStats Search Error
4 weeks ago James W. MacDonald 65k
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2
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1.0k
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Answer: Answer: Convert Seurat Object to Summarised Experiment or ExpressionSet
5 weeks ago James W. MacDonald 65k
1
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368
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Answer: Answer: Why is my gene not significantly differentially expressed?
5 weeks ago James W. MacDonald 65k
2
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1
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454
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Answer: Answer: Not fully paired differential gene expression analysis
5 weeks ago James W. MacDonald 65k
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162
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Answer: Answer: BAM write error in HTSeqGenie
5 weeks ago James W. MacDonald 65k
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1
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521
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Answer: Answer: GSVA on separate healthy and disease datasets
5 weeks ago James W. MacDonald 65k
2
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1
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365
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Answer: Answer: permutation test in edgeR
5 weeks ago James W. MacDonald 65k
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187
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Answer: Answer: How can I create a GO plot with ggpubr and clusterProfiler libraries (begginer)
5 weeks ago James W. MacDonald 65k
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1
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277
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Answer: Answer: Lib sizes in the DGE object are different from original lib sizes
5 weeks ago James W. MacDonald 65k
1
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0
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256
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Answer: Answer: MethylKit read issue
5 weeks ago James W. MacDonald 65k
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1
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329
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Answer: Answer: Help with design.matrix
5 weeks ago James W. MacDonald 65k
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1
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182
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Answer: Answer: What to the log 2 fold changes mean using LRT on time course in DESeq2
5 weeks ago James W. MacDonald 65k
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0
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187
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Answer: Answer: DESeq2 - Missing values in count matrix
6 weeks ago James W. MacDonald 65k
0
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1
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455
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Answer: Answer: DESeq2 step-by-step Normalization then DGE separately & Normalization methods an
6 weeks ago James W. MacDonald 65k
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1
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205
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Answer: Answer: voom(calcNormFactors()) for normalization of RNAseq counts for WGCNA
6 weeks ago James W. MacDonald 65k
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1
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361
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Answer: Answer: unable to access Annotationhub latest record
6 weeks ago James W. MacDonald 65k
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1
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182
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Answer: Answer: pca with VST of DESeq2 give 100% variance in PC1
6 weeks ago James W. MacDonald 65k
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162
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Answer: Answer: Multiple affymatrix IDs mapping to a single gene name
6 weeks ago James W. MacDonald 65k
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121
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Answer: Answer: Brachypodium distachyon db
6 weeks ago James W. MacDonald 65k
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1
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195
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Answer: Answer: How to make GSEAplot with chip set
6 weeks ago James W. MacDonald 65k
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1
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189
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Answer: Answer: Gene Ontology doubt
6 weeks ago James W. MacDonald 65k
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2
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261
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Answer: Answer: Minfi - estimatecellscount
6 weeks ago James W. MacDonald 65k
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238
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Answer: Answer: WGCNA: analysis of complex trait associations with regressions
7 weeks ago James W. MacDonald 65k
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150
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Answer: Answer: Trimming a section of a scaffold from a genome
7 weeks ago James W. MacDonald 65k
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