Showing : Plot • reset
11
votes
15
replies
2.7k
views
edgeR - MDS Plot for Count Data
edger DEG mds plot
6.7 years ago baus87 • 0
0
votes
9
replies
1.2k
views
Plotting change over time
deseq2 Plot
updated 4.1 years ago by 41k • written 4.1 years ago by • 0
0
votes
6
replies
1.5k
views
expression correlation on an ExpressionSet
ExpressionSet caseControl Correlation Plot
updated 6.9 years ago by • 0 • written 7.2 years ago by ▴ 10
2
votes
5
replies
1.7k
views
rlog, lfcShrink and vst on gene subset
deseq2 subsetting plot
updated 5.9 years ago by 41k • written 5.9 years ago by ▴ 10
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 ★ 5.2k • written 4.7 years ago by • 0
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
0
votes
4
replies
1.2k
views
AlignmentsTrack empty plot
Coverage RNASeq plot Gviz
updated 15 months ago by 65k • written 2.7 years ago by • 0
0
votes
4
replies
2.6k
views
heatmap.2 like plot in ggplot
plot
updated 9.5 years ago by 65k • written 9.5 years ago by ▴ 120
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 ★ 11k • written 7.3 years ago by ▴ 10
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
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 ★ 11k • written 7.3 years ago by ▴ 10
1
vote
3
replies
1.7k
views
copy number variation analysis (CNV)
copynumber plot visualization NGS gene
updated 3.4 years ago by ▴ 190 • written 3.5 years ago by • 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 ★ 5.2k • written 4.4 years ago by ▴ 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
1
vote
2
replies
1.8k
views
clusterporfiler enrichGO plot
clusterprofiler gene ontology plot
updated 3.6 years ago by ▴ 40 • written 3.6 years ago by • 0
0
votes
2
replies
5.1k
views
Plots and Heat Maps not displaying in RGui Window
plot heatmap graphical rnaseqgene deseqdataset
9.0 years ago greg.mulhearn • 0
2
votes
2
replies
1.8k
views
Ploting with NA values in Gviz (generic function from plot)
Gviz Plot NA graph Job
updated 8.7 years ago by 65k • written 8.7 years ago by ▴ 40
1
vote
2
replies
1.6k
views
"confint" type in DataTrack function (Gviz)
Gviz plot confidence interval
updated 8.7 years ago by ★ 1.6k • written 8.7 years ago by ▴ 40
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 ▴ 130 • written 7.8 years ago by ▴ 10
1
vote
2
replies
1.9k
views
Manhattan plot from ChAMP data
champ plot manhattan plot
updated 7.1 years ago by ▴ 90 • written 7.1 years ago by ▴ 10
2
votes
2
replies
1.3k
views
Change legend names when using plotBCV
edger plot Tutorial
updated 5.7 years ago by 50k • written 5.7 years ago by • 0
0
votes
2
replies
972
views
Can we control colors for two different colAtributes
diffbind plot plotHeatmap
updated 4.7 years ago by ★ 5.2k • written 4.7 years ago by • 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 ▴ 350 • written 4.5 years ago by • 0
0
votes
2
replies
904
views
Correlation plot how to improve?
plot correlation
4.5 years ago annkolman78 • 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 ★ 5.2k • written 3.5 years ago by • 0
0
votes
2
replies
3.5k
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 ★ 4.0k • written 3.2 years ago by • 0
0
votes
2
replies
3.6k
views
Gene body coverage plot
plot gene GenomicRanges Coverage R
updated 2.1 years ago by ▴ 20 • written 2.1 years ago by • 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 ★ 1.6k • written 7.8 years ago by ▴ 10
0
votes
1
reply
1.2k
views
lumi: can't see sample corr pairwise and MAplot plots
lumi plot
updated 9.2 years ago by 50k • written 9.2 years ago by ▴ 100
0
votes
1
reply
4.2k
views
flowPeaks - plot.new() error due to too many graphs in one R Graphics window
flowpeaks plot
updated 9.2 years ago by 65k • written 9.2 years ago by ▴ 10
0
votes
1
reply
783
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 3.8k • written 3.4 years ago by • 0
0
votes
1
reply
742
views
two tracks have the same axis
plot Gviz
3.4 years ago 腾 • 0
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
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 ★ 13k • written 6.9 years ago by • 0
2
votes
1
reply
926
views
Plotting Gene Expression Data From Multiple Batches
batch effect microarray plot
updated 6.8 years ago by ★ 2.0k • written 6.8 years ago by ▴ 90
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
0
votes
1
reply
2.0k
views
Plotting coverage from bam files
bam plot
updated 6.0 years ago by 65k • written 6.0 years ago by ▴ 40
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 ▴ 420 • written 5.6 years ago by • 0
0
votes
1
reply
1.3k
views
SC3 how to customize plots ?
SC3 plot consensus marker heatmap
updated 5.4 years ago by ▴ 150 • written 5.4 years ago by • 0
0
votes
1
reply
860
views
plot get overridden rather to overlapped
rsamtools ggplot2 plot
updated 5.4 years ago by 65k • written 5.4 years ago by ▴ 10
0
votes
1
reply
787
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 ★ 5.2k • written 4.7 years ago by • 0
0
votes
1
reply
1.0k
views
How to create a violin plot
plot ggcyte
updated 4.6 years ago by ★ 3.9k • written 4.6 years ago by • 0
0
votes
1
reply
760
views
part of the volcano plot does not appear.
plot volcano volcanoplot
updated 14 months ago by ▴ 780 • written 14 months ago by ▴ 10
1
vote
1
reply
1.5k
views
ggplot same data, different plots
ggplot2 ggplot plot
updated 8.2 years ago by 65k • written 8.2 years ago by ▴ 50
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
0
replies
636
views
Problem with Plots or Graphics Device in the RStudio
NullDevice plot R
2.5 years ago Abdou-samad • 0
0
votes
0
replies
1.0k
views
Plotting False discoveries vs genes selected
plot
7.8 years ago humberto_munoz • 0
0
votes
0
replies
993
views
Plotting DataTrack for non-model organism.
Gviz plot chipseq
6.6 years ago anupriyaverma1408 • 0
0
votes
0
replies
689
views
Problems with cummeRbund
plot transcriptomics differential expression cummeRbund
4.1 years ago raquelponti • 0
0
votes
0
replies
1.1k
views
changing the plot type in minet package
minet plot
8.1 years ago Angel ▴ 40
50 results • Page 1 of 1
Recent ...
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Comment: DESeq2 output used for PCA plot on R studio by Kevin Blighe ★ 3.9k
This comment helps.
Comment: DESeq2 output used for PCA plot on R studio by Kevin Blighe ★ 3.9k
I am not sure how your comment helps here?
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.
Votes
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
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