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Answer: Answer: Use of org.Rn.eg.db with GRCr8 reference genome
2 days ago James W. MacDonald 68k
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379
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Answer: Answer: Clarification on GOALL / GO2ALLORFs mapping
2 days ago James W. MacDonald 68k
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Comment: Comment: Discrepancy between Excel TPP-TR reported values and the Melt Curve reported val
4 days ago James W. MacDonald 68k
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660
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Answer: Answer: Limma - Complex 2-way multi-level contrast with paired samples
4 days ago James W. MacDonald 68k
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384
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Answer: Answer: Using tximport for kallisto aligned TOIL data
6 days ago James W. MacDonald 68k
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252
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Answer: Answer: Reading gene expression data in GPR format and converting it to xlsx format
6 days ago James W. MacDonald 68k
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679
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Answer: Answer: Differential expression of proteins using somascan data
9 days ago James W. MacDonald 68k
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210
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Answer: Answer: library org.Hs.eg.db failing to install
10 days ago James W. MacDonald 68k
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1
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307
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Answer: Answer: Seeking Advice on HTA 2.0 Microarray Data Processing with Oligo Package
10 days ago James W. MacDonald 68k
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171
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Comment: Comment: Conumee2 - CNV.summaryplot()
12 days ago James W. MacDonald 68k
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115
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Answer: Answer: myvariant error
12 days ago James W. MacDonald 68k
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171
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Answer: Answer: Conumee2 - CNV.summaryplot()
12 days ago James W. MacDonald 68k
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194
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Answer: Answer: pairedGSEA input files
17 days ago James W. MacDonald 68k
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974
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Answer: Answer: Group-specific condition effects with individuals nested: matrix is not full ra
17 days ago James W. MacDonald 68k
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157
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Answer: Answer: TheProcess got Killed
17 days ago James W. MacDonald 68k
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974
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Comment: Comment: Group-specific condition effects with individuals nested: matrix is not full ra
18 days ago James W. MacDonald 68k
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313
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Answer: Answer: How to adjust for Cell Type Differences between groups in Pseudo-Bulk Differenti
19 days ago James W. MacDonald 68k
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522
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Answer: Answer: normalizatino of dna methylation EPIC data
24 days ago James W. MacDonald 68k
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334
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Answer: Answer: WGCNA
24 days ago James W. MacDonald 68k
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192
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Answer: Answer: Pathview visualisation not including positive log2 fold changes
25 days ago James W. MacDonald 68k
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461
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Answer: Answer: UniProt.ws query for single UniRef90 ID takes several minutes
26 days ago James W. MacDonald 68k
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2
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400
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Answer: Answer: batch effect removal for agilent microarray data
26 days ago James W. MacDonald 68k
2
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1
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996
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Answer: Answer: Store Matrix in DataFrame Cell
4 weeks ago James W. MacDonald 68k
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1
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690
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Comment: Comment: For some reason I can't update BiocManager to 3.20
4 weeks ago James W. MacDonald 68k
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513
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Answer: Answer: DESeq2 adujsted p-value cutoff seemingly not working
5 weeks ago James W. MacDonald 68k
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780
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Answer: Answer: Issue with assigning transcript IDs to reads when using summarizeOverlaps(mode =
5 weeks ago James W. MacDonald 68k
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297
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Answer: Answer: Meffil: error in functional normalization function (Error in rg.to.mu(rg, probes
5 weeks ago James W. MacDonald 68k
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442
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Answer: Answer: displaying the differential expression with deseq2 over 4X2 samples with the in
5 weeks ago James W. MacDonald 68k
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202
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Answer: Answer: I am having issues with bowtie2_build
6 weeks ago James W. MacDonald 68k
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471
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Answer: Answer: Selection of correct coefficients or contrasts in DESeq2
7 weeks ago James W. MacDonald 68k
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1.1k
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Comment: Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
7 weeks ago James W. MacDonald 68k
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186
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Answer: Answer: Unable to find sample sheet file for ChAMP methylation data analysis
7 weeks ago James W. MacDonald 68k
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165
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Answer: Answer: affymetrix
7 weeks ago James W. MacDonald 68k
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1.2k
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Comment: Comment: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
8 weeks ago James W. MacDonald 68k
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1.2k
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Comment: Comment: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
8 weeks ago James W. MacDonald 68k
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1.2k
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Comment: Comment: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
8 weeks ago James W. MacDonald 68k
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1.2k
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Answer: Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
8 weeks ago James W. MacDonald 68k
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179
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Answer: Answer: XCMS Data Processing
8 weeks ago James W. MacDonald 68k
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659
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Comment: Comment: Error using useMart or useEnsembl
8 weeks ago James W. MacDonald 68k
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1
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659
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Answer: Answer: Error using useMart or useEnsembl
8 weeks ago James W. MacDonald 68k
2
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587
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Answer: Answer: Error in download.file for TCGAutils::symbolsToRanges
8 weeks ago James W. MacDonald 68k
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747
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Comment: Comment: Biomart and ensembl not working?
8 weeks ago James W. MacDonald 68k
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747
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Answer: Answer: Biomart and ensembl not working?
8 weeks ago James W. MacDonald 68k
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160
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Answer: Answer: Unknown gene transcripts after annotatr
8 weeks ago James W. MacDonald 68k
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474
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Answer: Answer: DESeq2 Heatmap
8 weeks ago James W. MacDonald 68k
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157
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Answer: Answer: Improve performance of qusage aggregateGeneSet
8 weeks ago James W. MacDonald 68k
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136
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Answer: Answer: promoters_txdb <- promoters(txdb, upstream = 2000) is not 2000
8 weeks ago James W. MacDonald 68k
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481
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Comment: Comment: iam not able to do retrive data using GEOquery R package
9 weeks ago James W. MacDonald 68k
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481
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Answer: Answer: iam not able to do retrive data using GEOquery R package
9 weeks ago James W. MacDonald 68k
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871
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Comment: Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
9 weeks ago James W. MacDonald 68k
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