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vanillaice
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Where is 'constructOligoSetFrom' or 'constructOligoSetListFrom' function?
crlmm
vanillaice
8.8 years ago
Shi, Tao
▴ 720
0
votes
4
replies
1.4k
views
Trouble following the first 5 lines of vanillaICE tutorial?
SNP6
crlmm
vanillaice
vanillaice crlmm
cnv
updated 8.9 years ago by
rscharpf
• 0 • written 8.9 years ago by
cafelumiere12
▴ 20
0
votes
0
replies
1.1k
views
Copy number analysis
SNP
affy
VanillaICE
SNP
affy
VanillaICE
12.1 years ago
Rob Scharpf
▴ 250
0
votes
2
replies
1.1k
views
VanillaICE
Proteomics
VanillaICE
Proteomics
VanillaICE
updated 12.5 years ago by
Valerie Obenchain
★ 6.8k • written 12.5 years ago by
Francesco Mancuso
▴ 110
0
votes
0
replies
1.1k
views
Annotation for Mouse Affy SNP arrays (MOUSEDIVm520650)?
Annotation
Cancer
VanillaICE
crlmm
Annotation
Cancer
VanillaICE
crlmm
12.6 years ago
Daniel Rico
▴ 110
0
votes
0
replies
1.3k
views
Question about using oligo and SNPchip for copy number analysis
SNP
Cancer
graph
oligo
SNPchip
oligoClasses
VanillaICE
crlmm
SNP
Cancer
graph
oligo
15.0 years ago
Min-Han Tan
▴ 40
0
votes
4
replies
1.5k
views
Creating a new instance of oligoSnpSet
Annotation
Cancer
Breast
VanillaICE
copynumber
Annotation
Cancer
Breast
VanillaICE
15.4 years ago
Steven McKinney
▴ 310
7 results • Page
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Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
by
Michael Love
41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Comment: Trying to use enrichGO
by
fernanda.backsouza
▴ 10
With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Answer: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
swbarnes2
★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error
by
James W. MacDonald
65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Votes
C: when to apply quantile normalization with voom in limma/voom framework with RNA-
A: How to know if I should use voomWithQualityWeights() or not?
A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom
Answer: Log-cpm values from limma
Answer: Log-cpm values from limma
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