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hugene20
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2.6k
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Reading Affymetrix data from pd.hugene.2.0.st using affy
affy
pd.hugene.2.0.st
hugene20
annotation
microarray
9.1 years ago
kanacska
▴ 10
0
votes
3
replies
2.4k
views
HUgene 2.0 analyses with CEL files, oligo package
microarray
annotation
hgu133plus2
hugene20
9.1 years ago
kanacska
▴ 10
4
votes
10
replies
2.3k
views
Limma/oligo always crashing
limma
microarray
pd.hugene.2.0.st
hugene20
oligo
8.2 years ago
hakimelakhrass
• 0
0
votes
4
replies
2.3k
views
HUgene 2.0 analyses heatmap
hugene20
heatmap
affymetrixchip
updated 8.9 years ago by
alakatos
▴ 130 • written 9.0 years ago by
kanacska
▴ 10
2
votes
2
replies
2.8k
views
HuGene 2.0 ST CDF files and xps
xps
hugene20
updated 9.6 years ago by
cstrato
★ 3.9k • written 9.6 years ago by
Alison Ziesel
▴ 60
3
votes
10
replies
1.9k
views
Still need help identifying a good workflow for finding DEG in hugene 2.0 st
microarray
hugene20
limma
oligo
updated 8.2 years ago by
Aaron Lun
★ 28k • written 8.2 years ago by
hakimelakhrass
• 0
0
votes
0
replies
2.7k
views
DE analysis pipeline with Hugene 2.0 ST arrays
hugene20
microarray
limma
limma paired analysis
oligo
8.2 years ago
hakimelakhrass
• 0
7 results • Page
1 of 1
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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
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
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
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