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Showing :
KEGGgraph
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1
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2
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467
views
KEGGgraph result difference
igraph
KEGGgraph
RCy3
GraphNEL
5 months ago • updated 4 months ago
Arindam
▴ 80
0
votes
3
replies
783
views
pathview error
KEGGgraph
KEGG
updated 8 months ago by
Guido Hooiveld
★ 4.1k • written 8 months ago by
Fara
• 0
1
vote
1
reply
432
views
Cannabis OrgDb
KEGGgraph
org.Cs.eg.db
clusterProfiler
KEGG
AnnotationHubSoftware
updated 9 months ago by
James W. MacDonald
68k • written 9 months ago by
fernanda.backsouza
▴ 30
4
votes
2
replies
596
views
Cannabis and KEGGgraph
KEGGREST
GenomicDistributionsData
KEGGgraph
KEGG
updated 9 months ago by
Guido Hooiveld
★ 4.1k • written 10 months ago by
fernanda.backsouza
▴ 30
2
votes
2
replies
539
views
Error in enrichKEGG for a model organism
enrichKEGG
KEGGgraph
KEGG
updated 12 months ago by
Guido Hooiveld
★ 4.1k • written 12 months ago by
cinzia.spagnoli
• 0
5 results • Page
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Replies
Comment: Weird p-values using DESeq2?
by
ATpoint
★ 4.7k
This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…
Answer: Weird p-values using DESeq2?
by
Wolfgang Huber
★ 13k
Dear Ingrid, thank you for asking. Can you provide the input count matrix (you can "pseudonymize" the biological conditions and the gene n…
Comment: How to visualize these pathways using pathview
by
ingrid.h
• 0
Yes I have seen it, thanks.
Comment: Store Matrix in DataFrame Cell
by
Dario Strbenac
★ 1.6k
It does not appear to work. > DataFrame(name = "test", value = list(matrix(1:4, ncol = 2))) DataFrame with 2 rows and 3 columns …
Comment: Overcoming confounding in batch effect correction
by
Dario Strbenac
★ 1.6k
Actually, it is directly related. ComBat-seq is a part of [sva][1] package. It should use sva tag. [1]: https://bioconductor.org/package…
Votes
A: Fraction count for multi mapping reads; how to generate input file for Deseq2 fo
Comment: Weird p-values using DESeq2?
Comment: Overcoming confounding in batch effect correction
Answer: Store Matrix in DataFrame Cell
Answer: enrichGOgradient color change
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shepherl
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