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volcanoplot
•
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0
votes
4
replies
1.2k
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Volcano plot becomes flipped when I add a third condition
DESeq2
volcanoplot
deseq
HELP
contrast
updated 14 months ago by
Basti
▴ 770 • written 14 months ago by
Michael
• 0
0
votes
1
reply
754
views
part of the volcano plot does not appear.
plot
volcano
volcanoplot
updated 14 months ago by
Basti
▴ 770 • written 14 months ago by
Sooni
▴ 10
0
votes
1
reply
571
views
Assigning the name of top 100 DE transcripts/genes to Volcano plot
limma
DEGreport
Volcanoplot
updated 15 months ago by
Gordon Smyth
50k • written 15 months ago by
Mohammad
• 0
3
votes
5
replies
2.0k
views
Volcano plot - select additional gene
EnhancedVolcano
RNASeqR
R
volcanoplot
updated 3.5 years ago by
Kevin Blighe
★ 3.9k • written 3.5 years ago by
camillab.
▴ 10
1
vote
5
replies
2.3k
views
Why the p value and logFC calculated by limma is so small
limma
volcanoplot
pvalue
logFC
updated 5.1 years ago by
Gordon Smyth
50k • written 5.1 years ago by
xingxd16
▴ 20
0
votes
4
replies
6.8k
views
Limma Volcano Plot Highlight Top Genes by Color
limma
microarray
volcanoplot
color
updated 5.5 years ago by
Gordon Smyth
50k • written 5.5 years ago by
dmm204
• 0
2
votes
4
replies
7.2k
views
Volcano Plot (highlighting top genes in a different color)
volcanoplot
updated 6.5 years ago by
thokall
▴ 160 • written 6.5 years ago by
Nithisha
▴ 10
0
votes
1
reply
1.0k
views
Pseudo-coloring DiffBind volcano plot
diffbind
chipseq
volcanoplot
ggplot2
updated 6.5 years ago by
Rory Stark
★ 5.1k • written 6.5 years ago by
rbronste
▴ 60
0
votes
2
replies
1.7k
views
Draw volcano plot by modifying contrast matrix (lumi package)
volcanoplot
design and contrast matrix
updated 6.6 years ago by
Gordon Smyth
50k • written 6.6 years ago by
marongiu.luigi
• 0
10
votes
3
replies
8.9k
views
Volcanoplot with limma - RAW P-values or Adj.P-Values
volcanoplot
limma
fdr
6.7 years ago • updated 3.4 years ago
tcalvo
▴ 90
0
votes
2
replies
1.2k
views
volcano plot in Limma
limma
volcanoplot
updated 8.0 years ago by
Aaron Lun
★ 28k • written 8.0 years ago by
mheydarpour
▴ 10
7
votes
4
replies
5.7k
views
Gene symbols on MA-plot
limma
plot.MA
volcanoplot
oligo
updated 8.8 years ago by
Gordon Smyth
50k • written 8.8 years ago by
Gabriel Nathan Kaufman, Mr
▴ 60
2
votes
2
replies
3.1k
views
cummeRbund change point size in volcano plot
cummerbund
ggplot2
size
r
volcanoplot
updated 9.4 years ago by
James W. MacDonald
65k • written 9.4 years ago by
ianmisner17
▴ 20
5
votes
4
replies
6.7k
views
Volcano plot labeling troubles
limma
volcanoplot
updated 6.7 years ago by
Gordon Smyth
50k • written 9.5 years ago by
mccallionc403
• 0
14 results • Page
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Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
by
Robert Castelo
★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq
by
lonn
• 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph
by
deeenes
▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches
by
Gordon Smyth
50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param
by
russ.bainer
▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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