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insilicomerging
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table (pData(eset_NONE)[,"Study"]); table(pData(eset_NONE)[,"Disease"]);
affy
insilicomerging
6.7 years ago
pratikshasharma47
• 0
1
vote
3
replies
1.6k
views
Two microarrays merging (different experiments) - Error with esets (inSilicoMerging package)
inSilicoMerging
microarray
affymetrix microarrays
updated 7.0 years ago by
James W. MacDonald
68k • written 7.0 years ago by
Adam_M
• 0
0
votes
1
reply
1.8k
views
InSilicoMerging error when using merge
insilicomerging
error
insilicodb
expressionset
8.9 years ago
andreas.pittroff
• 0
0
votes
3
replies
2.0k
views
error in drawing MDS plot for eset
MDSplot
geneexpression
insilicomerging
updated 9.7 years ago by
James W. MacDonald
68k • written 9.7 years ago by
Shamim Sarhadi
▴ 20
4
votes
8
replies
2.4k
views
Annotation Problem regarding double platform merged microarray eset using the inSilicoMerging R package, after differential expression analysis
inSilicoMerging
doubleannotation
affymetrix microarrays
limma
inSilicoDB
10.3 years ago
svlachavas
▴ 840
1
vote
2
replies
2.8k
views
Combining ExpressionSet objects : error with function merge() in "inSilicoMerging"
combine
expresiondataset
insilicomerging
10.4 years ago
alakatos
▴ 130
6
votes
4
replies
4.6k
views
Merge different datasets and perform differential expression analysis in limma
insilicomerging
batcheffect
limma
differential gene expression
bioconductor
updated 10.4 years ago by
Aaron Lun
★ 29k • written 10.4 years ago by
svlachavas
▴ 840
0
votes
0
replies
1.2k
views
problem with insilicoMerging
insilicomerging
10.5 years ago
carol white
▴ 680
1
vote
5
replies
2.6k
views
Appropriate merge of batches of the same array to create a final total ExpressionSet
frma
bioconductor
batcheffect
Primeview
insilicomerging
updated 10.6 years ago by
Matthew McCall
▴ 830 • written 10.6 years ago by
svlachavas
▴ 840
0
votes
0
replies
1.4k
views
'DWD' method in 'inSilicoMerging' packages
inSilicoMerging
11.1 years ago
Li Liu
▴ 100
0
votes
1
reply
1.6k
views
inSilicoMerging:::mergeCOMBAT covariates
inSilicoMerging
inSilicoMerging
updated 11.6 years ago by
Quentin De Clerck
▴ 10 • written 11.6 years ago by
François Lefebvre
▴ 50
0
votes
6
replies
3.0k
views
DWD method for batch effect removal
inSilicoMerging
inSilicoMerging
updated 12.3 years ago by
Dan Tenenbaum
★ 8.2k • written 12.3 years ago by
Li Liu
▴ 100
0
votes
2
replies
2.3k
views
inSilicoMerging and Limma
Colon
hgu133a2
hgu133plus2
limma
inSilicoMerging
Colon
hgu133a2
hgu133plus2
limma
12.5 years ago
Ed Siefker
▴ 230
13 results • Page
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Comment: DECIPHER DesignProbes unable to design FISH-probes
by
Erik Wright
▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment
by
Michael Love
43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment
by
Michael Love
43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Answer: PTM analysis in LIMPA
by
Gordon Smyth
53k
For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…
Answer: problem reading bam files into nucleR
by
James W. MacDonald
68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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