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Answer: Answer: pca with VST of DESeq2 give 100% variance in PC1
7 weeks ago James W. MacDonald 66k
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176
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Answer: Answer: Multiple affymatrix IDs mapping to a single gene name
7 weeks ago James W. MacDonald 66k
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453
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Comment: Comment: Internet connection for Bioconductor packages in Rstudio in Iran...
7 weeks ago James W. MacDonald 66k
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453
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Comment: Comment: Internet connection for Bioconductor packages in Rstudio in Iran...
7 weeks ago James W. MacDonald 66k
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130
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Answer: Answer: Brachypodium distachyon db
7 weeks ago James W. MacDonald 66k
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205
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Answer: Answer: How to make GSEAplot with chip set
7 weeks ago James W. MacDonald 66k
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196
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Answer: Answer: Gene Ontology doubt
7 weeks ago James W. MacDonald 66k
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377
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Comment: Comment: fgsea fork
8 weeks ago James W. MacDonald 66k
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272
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Answer: Answer: Minfi - estimatecellscount
8 weeks ago James W. MacDonald 66k
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249
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Answer: Answer: WGCNA: analysis of complex trait associations with regressions
8 weeks ago James W. MacDonald 66k
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161
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Answer: Answer: Trimming a section of a scaffold from a genome
8 weeks ago James W. MacDonald 66k
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575
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Comment: Comment: Microarray Limma Model fitting and DEG
8 weeks ago James W. MacDonald 66k
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575
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Answer: Answer: Microarray Limma Model fitting and DEG
8 weeks ago James W. MacDonald 66k
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245
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Answer: Answer: Problem with maplot {affy} method when using rma {affy} method output as its inp
8 weeks ago James W. MacDonald 66k
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196
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Answer: Answer: bioconductor emailing list
8 weeks ago James W. MacDonald 66k
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469
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Comment: Comment: Function 'sexp_as_cholmod_sparse' doesn't exist in the package 'Matrix'
8 weeks ago James W. MacDonald 66k
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247
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Answer: Answer: How to extract counts from a DESeq dataset ordered by a specific sample?
8 weeks ago James W. MacDonald 66k
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495
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Comment: Comment: Batch Effect Correction, Gene Filtering
9 weeks ago James W. MacDonald 66k
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495
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Comment: Comment: Batch Effect Correction, Gene Filtering
9 weeks ago James W. MacDonald 66k
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495
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Answer: Answer: Batch Effect Correction, Gene Filtering
9 weeks ago James W. MacDonald 66k
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Comment: Comment: Issue with Biomart- cannot access ensembl
9 weeks ago James W. MacDonald 66k
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261
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Answer: Answer: Non-empty droplets versus good quality cells
9 weeks ago James W. MacDonald 66k
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424
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Comment: Comment: Unable to annotate ExpressionSet object from hugene11st chip
9 weeks ago James W. MacDonald 66k
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274
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Answer: Answer: Problem converting msigdb Human symbols to Zebrafish in gmt format
9 weeks ago James W. MacDonald 66k
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313
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Answer: Answer: padj-based gradient scale from barplot (clusterProfiler results) does not work p
9 weeks ago James W. MacDonald 66k
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424
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Answer: Answer: Unable to annotate ExpressionSet object from hugene11st chip
9 weeks ago James W. MacDonald 66k
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267
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Answer: Answer: Perfoming clumping using ieugwasr package
10 weeks ago James W. MacDonald 66k
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191
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Answer: Answer: problem with ClusterRepro function
10 weeks ago James W. MacDonald 66k
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472
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Comment: Comment: DESeq2 filtering vs edgeR filtering
10 weeks ago James W. MacDonald 66k
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Comment: Comment: Problem at champ.load
10 weeks ago James W. MacDonald 66k
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3.4k
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Comment: Comment: error in ChAMP loading file
10 weeks ago James W. MacDonald 66k
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291
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Answer: Answer: Error in classify_gene_pairs
10 weeks ago James W. MacDonald 66k
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167
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Answer: Answer: Is random access by row index possible for an indexed VCF file?
10 weeks ago James W. MacDonald 66k
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464
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Comment: Comment: DESeq and SVA for batch effect
11 weeks ago James W. MacDonald 66k
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464
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Comment: Comment: DESeq and SVA for batch effect
11 weeks ago James W. MacDonald 66k
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285
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Answer: Answer: supportedOrganisms() in goseq producing Error in names(trackIds)
11 weeks ago James W. MacDonald 66k
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207
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Answer: Answer: Error with BSgenome, wanting to analyse non-model species with ATACseqQC
11 weeks ago James W. MacDonald 66k
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464
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Answer: Answer: DESeq and SVA for batch effect
11 weeks ago James W. MacDonald 66k
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565
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Comment: Comment: Constrast for Time Course Experiments using Limma
11 weeks ago James W. MacDonald 66k
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406
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Comment: Comment: Factor vs Character in design
11 weeks ago James W. MacDonald 66k
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2
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406
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Comment: Comment: Factor vs Character in design
11 weeks ago James W. MacDonald 66k
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406
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Answer: Answer: Factor vs Character in design
11 weeks ago James W. MacDonald 66k
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1.6k
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Comment: Comment: How to get DMR for Infinium methylation EPIC v2
11 weeks ago James W. MacDonald 66k
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325
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Comment: Comment: Would I treat surrogate variables as batches?
11 weeks ago James W. MacDonald 66k
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518
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Comment: Comment: DGE analysis with LIMMA
12 weeks ago James W. MacDonald 66k
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518
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Comment: Comment: DGE analysis with LIMMA
12 weeks ago James W. MacDonald 66k
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191
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Answer: Answer: error in Matrix function
12 weeks ago James W. MacDonald 66k
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325
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Answer: Answer: Would I treat surrogate variables as batches?
12 weeks ago James W. MacDonald 66k
2
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1
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518
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Answer: Answer: DGE analysis with LIMMA
12 weeks ago James W. MacDonald 66k
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268
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Answer: Answer: Changed DESeq2 comparison value but the heatmap is still the same
12 weeks ago James W. MacDonald 66k
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