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120
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Answer: Answer: I am having issues with bowtie2_build
3 days ago James W. MacDonald 67k
1
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0
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372
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Answer: Answer: Selection of correct coefficients or contrasts in DESeq2
8 days ago James W. MacDonald 67k
0
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1
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676
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Comment: Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
8 days ago James W. MacDonald 67k
0
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0
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120
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Answer: Answer: Unable to find sample sheet file for ChAMP methylation data analysis
8 days ago James W. MacDonald 67k
0
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0
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113
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Answer: Answer: affymetrix
11 days ago James W. MacDonald 67k
0
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0
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721
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Comment: Comment: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
15 days ago James W. MacDonald 67k
0
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0
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721
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Comment: Comment: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
15 days ago James W. MacDonald 67k
0
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1
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721
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Comment: Comment: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
16 days ago James W. MacDonald 67k
2
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2
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721
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Answer: Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
16 days ago James W. MacDonald 67k
0
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0
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115
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Answer: Answer: XCMS Data Processing
16 days ago James W. MacDonald 67k
0
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0
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238
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Comment: Comment: Error using useMart or useEnsembl
16 days ago James W. MacDonald 67k
0
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1
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238
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Answer: Answer: Error using useMart or useEnsembl
16 days ago James W. MacDonald 67k
2
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0
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539
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Answer: Answer: Error in download.file for TCGAutils::symbolsToRanges
16 days ago James W. MacDonald 67k
0
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0
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307
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Comment: Comment: Biomart and ensembl not working?
17 days ago James W. MacDonald 67k
0
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1
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307
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Answer: Answer: Biomart and ensembl not working?
17 days ago James W. MacDonald 67k
0
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0
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113
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Answer: Answer: Unknown gene transcripts after annotatr
17 days ago James W. MacDonald 67k
0
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0
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247
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Answer: Answer: DESeq2 Heatmap
17 days ago James W. MacDonald 67k
0
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0
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100
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Answer: Answer: Improve performance of qusage aggregateGeneSet
17 days ago James W. MacDonald 67k
0
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0
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98
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Answer: Answer: promoters_txdb <- promoters(txdb, upstream = 2000) is not 2000
19 days ago James W. MacDonald 67k
0
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0
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266
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Comment: Comment: iam not able to do retrive data using GEOquery R package
22 days ago James W. MacDonald 67k
0
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1
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266
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Answer: Answer: iam not able to do retrive data using GEOquery R package
22 days ago James W. MacDonald 67k
0
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0
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579
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Comment: Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
22 days ago James W. MacDonald 67k
0
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0
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146
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Answer: Answer: Installation error for Rsamtools.
22 days ago James W. MacDonald 67k
0
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0
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579
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Comment: Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
23 days ago James W. MacDonald 67k
1
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1
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579
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Answer: Answer: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
23 days ago James W. MacDonald 67k
0
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0
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795
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Comment: Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D
23 days ago James W. MacDonald 67k
0
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0
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919
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Comment: Comment: Deseq2, enrichGO and ensembl ID
24 days ago James W. MacDonald 67k
0
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1
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795
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Answer: Answer: Why did PCA plots look exactly the same after adjusting for batch covariate in D
24 days ago James W. MacDonald 67k
0
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1
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265
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Comment: Comment: Newbie Question - adding metadata to an analysis
24 days ago James W. MacDonald 67k
0
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1
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267
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Answer: Answer: Diffbind interpretation of data - fold change
25 days ago James W. MacDonald 67k
0
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0
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114
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Answer: Answer: No preprocessing allowed for EPICv2 with DMRcate
25 days ago James W. MacDonald 67k
0
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0
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566
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Comment: Comment: How do I fix an odd voom plot in a combined dataset?
25 days ago James W. MacDonald 67k
0
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1
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265
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Answer: Answer: Newbie Question - adding metadata to an analysis
25 days ago James W. MacDonald 67k
0
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0
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286
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Comment: Comment: MissMethyl failed to use gometh function for EPICv2
26 days ago James W. MacDonald 67k
0
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1
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286
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Answer: Answer: MissMethyl failed to use gometh function for EPICv2
26 days ago James W. MacDonald 67k
0
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0
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846
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Comment: Comment: Normalizing batch effects using technical replicates for DGE analysis between tw
6 weeks ago James W. MacDonald 67k
0
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1
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846
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Comment: Comment: Normalizing batch effects using technical replicates for DGE analysis between tw
6 weeks ago James W. MacDonald 67k
1
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1
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2.0k
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Comment: Comment: nightmare to make custom txdb for genomes from ToxoDB
6 weeks ago James W. MacDonald 67k
0
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1
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2.0k
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Answer: Answer: nightmare to make custom txdb for genomes from ToxoDB
6 weeks ago James W. MacDonald 67k
0
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0
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574
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Comment: Comment: Deseq2 Design
6 weeks ago James W. MacDonald 67k
0
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0
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299
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Answer: Answer: Build error on kunpeng2 Linux aarch64
6 weeks ago James W. MacDonald 67k
0
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0
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1.8k
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Comment: Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
6 weeks ago James W. MacDonald 67k
0
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1
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574
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Comment: Comment: Deseq2 Design
6 weeks ago James W. MacDonald 67k
0
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0
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629
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Comment: Comment: Help using rtracklayer for gene ID extraction
7 weeks ago James W. MacDonald 67k
1
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1
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574
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Answer: Answer: Deseq2 Design
7 weeks ago James W. MacDonald 67k
0
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0
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510
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Answer: Answer: Cannot install GO.db and org.Hs.eg.db
7 weeks ago James W. MacDonald 67k
0
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2
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523
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Answer: Answer: p value is 0, padj is 0
7 weeks ago James W. MacDonald 67k
0
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1
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629
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Answer: Answer: Help using rtracklayer for gene ID extraction
7 weeks ago James W. MacDonald 67k
0
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0
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433
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Comment: Comment: DESeq2 - Comparing Comparisons
7 weeks ago James W. MacDonald 67k
1
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1
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489
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Comment: Comment: Can we get beta values with DMRcate package
7 weeks ago James W. MacDonald 67k
8,735 results • Page 1 of 175
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