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0
votes
1
reply
765
views
part of the volcano plot does not appear.
plot
volcano
volcanoplot
updated 14 months ago by
Basti
▴ 780 • written 14 months ago by
Sooni
▴ 10
0
votes
4
replies
1.2k
views
AlignmentsTrack empty plot
Coverage
RNASeq
plot
Gviz
updated 15 months ago by
James W. MacDonald
65k • written 2.7 years ago by
karlaarz
• 0
0
votes
0
replies
428
views
maSigPro visualizing individually each plot from each cluster
plot
maSigPro
Clustering
20 months ago
oseias.rf.junior
• 0
0
votes
2
replies
3.7k
views
Gene body coverage plot
plot
gene
GenomicRanges
Coverage
R
updated 2.1 years ago by
kent.riemondy
▴ 20 • written 2.1 years ago by
svenbioinf
• 0
0
votes
0
replies
744
views
Gage pathway analysis of RNAseq graphical representation as dot plot
gage
plot
RNASeq
goseq
updated 2.1 years ago by
Michael Love
41k • written 2.1 years ago by
m.glymenaki
• 0
0
votes
0
replies
638
views
Problem with Plots or Graphics Device in the RStudio
NullDevice
plot
R
2.5 years ago
Abdou-samad
• 0
0
votes
0
replies
674
views
Gviz: set colors for UTRs
plot
color
Gviz
utr
3.0 years ago
ginlucks
• 0
0
votes
2
replies
3.6k
views
Error in (function (classes, fdef, mtable) : unable to find an inherited method for function ‘plotPCA’ for signature ‘"prcomp"’
plotGrouper
DESeq2
plot
updated 3.2 years ago by
ATpoint
★ 4.0k • written 3.2 years ago by
Sowbhagyalakshmi
• 0
1
vote
3
replies
1.7k
views
copy number variation analysis (CNV)
copynumber
plot
visualization
NGS
gene
updated 3.4 years ago by
Ram
▴ 190 • written 3.5 years ago by
sijing.gsj
• 0
0
votes
1
reply
747
views
two tracks have the same axis
plot
Gviz
3.4 years ago
腾
• 0
0
votes
1
reply
788
views
I am using the DEP package example dataset, and I am getting this error on: plot_frequency(data_se)
DEP
R
Bioconductor
Plot
updated 3.4 years ago by
shepherl
3.8k • written 3.4 years ago by
tpm
• 0
2
votes
2
replies
1.0k
views
[dba.plotvenn] Can I move around the numbers in the diagram so that they fit inside the overlapped region?
diffbind
plot
venn diagram
updated 3.5 years ago by
Rory Stark
★ 5.2k • written 3.5 years ago by
jiekwo1
• 0
1
vote
2
replies
1.8k
views
clusterporfiler enrichGO plot
clusterprofiler
gene ontology
plot
updated 3.6 years ago by
793345316
▴ 40 • written 3.6 years ago by
kagan.ferenc
• 0
0
votes
9
replies
1.2k
views
Plotting change over time
deseq2
Plot
updated 4.1 years ago by
Michael Love
41k • written 4.1 years ago by
mpuli011
• 0
0
votes
0
replies
690
views
Problems with cummeRbund
plot
transcriptomics
differential expression
cummeRbund
4.1 years ago
raquelponti
• 0
0
votes
3
replies
1.5k
views
Change color of Diffbind's PCA and clustered heatmap plot()
DiffBind
plot
color
updated 4.3 years ago by
Rory Stark
★ 5.2k • written 4.4 years ago by
melnuesch
▴ 10
0
votes
2
replies
907
views
Correlation plot how to improve?
plot
correlation
4.5 years ago
annkolman78
• 0
1
vote
2
replies
1.2k
views
Obtain the first gene expression heatmaps from GOexpress package gene ontology enrichment analysis results
GOexpress
heatmap
gene ontology
plot
updated 4.5 years ago by
kevin.rue
▴ 350 • written 4.5 years ago by
Antonio Campos
• 0
0
votes
1
reply
1.0k
views
How to create a violin plot
plot
ggcyte
updated 4.6 years ago by
Kevin Blighe
★ 3.9k • written 4.6 years ago by
vasildmb
• 0
0
votes
1
reply
788
views
Can we change the name of the ColAttributes in the image generated by dba.plotHeatmap?
DiffBind
plot
plotHeatmap
dba.plotHeatmap
updated 4.7 years ago by
Rory Stark
★ 5.2k • written 4.7 years ago by
researcher
• 0
0
votes
2
replies
974
views
Can we control colors for two different colAtributes
diffbind
plot
plotHeatmap
updated 4.7 years ago by
Rory Stark
★ 5.2k • written 4.7 years ago by
researcher
• 0
0
votes
5
replies
2.8k
views
How can I remove the row and column labels/names in the plot() or dba.plotHeatmap() while plotting correlation matrix using diffbind?
Diffbind
plot
heatmap.3
updated 4.7 years ago by
Rory Stark
★ 5.2k • written 4.7 years ago by
researcher
• 0
0
votes
1
reply
1.3k
views
SC3 how to customize plots ?
SC3
plot
consensus
marker
heatmap
updated 5.4 years ago by
Vladimir Kiselev
▴ 150 • written 5.4 years ago by
shaktirielland
• 0
0
votes
1
reply
863
views
plot get overridden rather to overlapped
rsamtools
ggplot2
plot
updated 5.4 years ago by
James W. MacDonald
65k • written 5.4 years ago by
mictadlo
▴ 10
0
votes
1
reply
2.9k
views
How can I create a mean ROC curve for multiple plotted ROC curves, R
R
ROC
mean
plot
multiple roc curves
updated 5.6 years ago by
chris86
▴ 420 • written 5.6 years ago by
sap940
• 0
2
votes
2
replies
1.3k
views
Change legend names when using plotBCV
edger
plot
Tutorial
updated 5.7 years ago by
Gordon Smyth
50k • written 5.7 years ago by
Juan
• 0
2
votes
5
replies
1.7k
views
rlog, lfcShrink and vst on gene subset
deseq2
subsetting
plot
updated 5.9 years ago by
Michael Love
41k • written 5.9 years ago by
giulia.pasquesi
▴ 10
0
votes
1
reply
2.0k
views
Plotting coverage from bam files
bam
plot
updated 6.0 years ago by
James W. MacDonald
65k • written 6.0 years ago by
gv
▴ 40
0
votes
3
replies
1.2k
views
Adding gene names which are differentially expressed in the plot
edgeR
plot
differential gene expression
6.5 years ago
fawazfebin
▴ 60
0
votes
0
replies
996
views
Plotting DataTrack for non-model organism.
Gviz
plot
chipseq
6.6 years ago
anupriyaverma1408
• 0
11
votes
15
replies
2.7k
views
edgeR - MDS Plot for Count Data
edger
DEG
mds
plot
6.7 years ago
baus87
• 0
2
votes
1
reply
929
views
Plotting Gene Expression Data From Multiple Batches
batch effect
microarray
plot
updated 6.8 years ago by
Jenny Drnevich
★ 2.0k • written 6.8 years ago by
tcalvo
▴ 90
0
votes
1
reply
1.5k
views
Save multiple plots into single pdf from Deseq2 analysis?
plot
pdf
dev.off
updated 6.9 years ago by
Wolfgang Huber
★ 13k • written 6.9 years ago by
Bio_Ram
• 0
0
votes
6
replies
1.5k
views
expression correlation on an ExpressionSet
ExpressionSet
caseControl
Correlation
Plot
updated 7.0 years ago by
vulegom
• 0 • written 7.2 years ago by
DataFanatic
▴ 10
0
votes
1
reply
1.2k
views
ConsensusClusterPlus - function "calcICL" - How the samples are ordered in the plots???
ConsensusClusterPlus
calcICL
plot
7.4 years ago • updated 7.0 years ago
juan-pablo.cerapio-arroyo
▴ 10
1
vote
2
replies
1.9k
views
Manhattan plot from ChAMP data
champ
plot
manhattan plot
updated 7.1 years ago by
Yuan Tian
▴ 90 • written 7.1 years ago by
rasmus.rydbirk
▴ 10
1
vote
3
replies
2.8k
views
Combining LD matrix plot with SNP and gene data with ggplot / ggbio tracks() function
ggplot2
ggbio
plot
tracks
bioconductor
updated 7.3 years ago by
Michael Lawrence
★ 11k • written 7.3 years ago by
oswaldo.lorenzo
▴ 10
2
votes
4
replies
1.3k
views
ggbio tracks () does not allow "call" class in the "main" slot of the function
ggbio
ggplot2
call
plot
updated 7.3 years ago by
Michael Lawrence
★ 11k • written 7.3 years ago by
oswaldo.lorenzo
▴ 10
1
vote
1
reply
1.6k
views
How to show chromosome position and SNP label at the same time in x axis
ggbio
ggplot2
genomics
plot
7.6 years ago
oswaldo.lorenzo
▴ 10
2
votes
3
replies
1.7k
views
ggbio tracks() function handling x axis in the wrong way
ggbio
ggplot2
tracks
genomics
plot
7.6 years ago
oswaldo.lorenzo
▴ 10
0
votes
0
replies
1.0k
views
Plotting False discoveries vs genes selected
plot
7.8 years ago
humberto_munoz
• 0
4
votes
1
reply
2.0k
views
gviz: add horizontal line to DataTrack object
bioconductor
gviz
plot
horizontal line
updated 7.8 years ago by
florian.hahne@novartis.com
★ 1.6k • written 7.8 years ago by
silvia.parolo
▴ 10
2
votes
2
replies
1.3k
views
Anyone know how to make a plot like this - I don't even know what it's called.
plot
ggplot2
updated 7.8 years ago by
WouterDeCoster
▴ 130 • written 7.8 years ago by
clairelsimpson
▴ 10
0
votes
0
replies
1.1k
views
changing the plot type in minet package
minet
plot
8.1 years ago
Angel
▴ 40
1
vote
1
reply
1.5k
views
ggplot same data, different plots
ggplot2
ggplot
plot
updated 8.3 years ago by
James W. MacDonald
65k • written 8.3 years ago by
alptaciroglu
▴ 50
0
votes
0
replies
1.1k
views
GenomeGraphs, modify Y axis
genomegraphs
biomart
plot
graphics
8.7 years ago
koenhendriks89
• 0
1
vote
2
replies
1.6k
views
"confint" type in DataTrack function (Gviz)
Gviz
plot
confidence interval
updated 8.7 years ago by
florian.hahne@novartis.com
★ 1.6k • written 8.7 years ago by
Vinicius Henrique da Silva
▴ 40
2
votes
2
replies
1.8k
views
Ploting with NA values in Gviz (generic function from plot)
Gviz
Plot
NA
graph
Job
updated 8.8 years ago by
James W. MacDonald
65k • written 8.8 years ago by
Vinicius Henrique da Silva
▴ 40
0
votes
1
reply
1.4k
views
Ringo Plots Only Partially Made
Ringo
affy
tilingarray
plot
starr
8.8 years ago
bruce.moran
▴ 30
0
votes
5
replies
2.0k
views
R plot error
r
bioconductor
graph
plot
data representation in graphical forms
8.9 years ago
megha.24may
• 0
50 results • Page
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Answer: Dominance Index for Shotgun Metagenomics Data
by
Leo Lahti
▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
pl23
• 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions
by
Michael Love
41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
by
ussarizona
▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative?
by
Michael Love
41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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