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kmeans
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Error and questions about clustering & ploting functions in r packages cluster and mclust regarding kmeans method
cluster
mclust
limma
clusplot
kmeans
8.7 years ago
svlachavas
▴ 830
0
votes
0
replies
2.7k
views
pheatmap - Error in do_one(nmeth) : NA/NaN/Inf in foreign function call (arg 1)
pheatmap
kmeans
6.5 years ago
Assa Yeroslaviz
★ 1.5k
0
votes
4
replies
1.3k
views
Gene clusters based on gene expression across samples
kmeans
gene expression
clustering
6.5 years ago
Jane Merlevede
▴ 90
0
votes
1
reply
979
views
Global Trend Analysis using results from EdgeR
EdgeR
clustering
differential gene expression
consensusclusterplus
kmeans
updated 6.0 years ago by
Aaron Lun
★ 28k • written 6.0 years ago by
anupriya.dalmia
• 0
4 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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