Showing : plot • reset
0
votes
3
replies
1.5k
views
Change color of Diffbind's PCA and clustered heatmap plot()
DiffBind plot color
updated 4.2 years ago by ★ 5.1k • written 4.4 years ago by ▴ 10
11
votes
15
replies
2.7k
views
edgeR - MDS Plot for Count Data
edger DEG mds plot
6.7 years ago • updated 6.6 years ago baus87 • 0
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
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
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
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
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
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
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
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
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
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 7.2 years ago by ★ 11k • written 7.2 years ago by ▴ 10
1
vote
2
replies
1.7k
views
clusterporfiler enrichGO plot
clusterprofiler gene ontology plot
updated 3.6 years ago by ▴ 40 • written 3.6 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
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
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
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
2.0k
views
Plotting coverage from bam files
bam plot
updated 6.0 years ago by 65k • written 6.0 years ago by ▴ 40
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
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 5.3 years ago by ▴ 150 • written 5.4 years ago by • 0
0
votes
1
reply
857
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
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 ★ 5.1k • written 4.7 years ago by • 0
0
votes
2
replies
964
views
Can we control colors for two different colAtributes
diffbind plot plotHeatmap
updated 4.7 years ago by ★ 5.1k • written 4.7 years ago by • 0
0
votes
1
reply
786
views
Can we change the name of the ColAttributes in the image generated by dba.plotHeatmap?
DiffBind plot plotHeatmap dba.plotHeatmap
updated 4.6 years ago by ★ 5.1k • written 4.7 years ago by • 0
0
votes
1
reply
1.0k
views
How to create a violin plot
plot ggcyte
updated 4.5 years ago by ★ 3.9k • written 4.6 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
9
replies
1.2k
views
Plotting change over time
deseq2 Plot
updated 4.0 years ago by 41k • written 4.0 years ago by • 0
0
votes
1
reply
1.4k
views
Ringo Plots Only Partially Made
Ringo affy tilingarray plot starr
8.8 years ago bruce.moran ▴ 30
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 ★ 5.1k • written 3.5 years ago by • 0
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
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
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
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
0
votes
1
reply
1.5k
views
Save multiple plots into single pdf from Deseq2 analysis?
plot pdf dev.off
updated 6.8 years ago by ★ 13k • written 6.8 years ago by • 0
2
votes
1
reply
923
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
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
0
replies
737
views
Gage pathway analysis of RNAseq graphical representation as dot plot
gage plot RNASeq goseq
updated 2.1 years ago by 41k • written 2.1 years ago by • 0
0
votes
0
replies
633
views
Problem with Plots or Graphics Device in the RStudio
NullDevice plot R
2.5 years ago Abdou-samad • 0
0
votes
2
replies
897
views
Correlation plot how to improve?
plot correlation
4.5 years ago annkolman78 • 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
992
views
Plotting DataTrack for non-model organism.
Gviz plot chipseq
6.6 years ago anupriyaverma1408 • 0
0
votes
3
replies
1.1k
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
1.1k
views
GenomeGraphs, modify Y axis
genomegraphs biomart plot graphics
8.6 years ago koenhendriks89 • 0
0
votes
0
replies
686
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
8.0 years ago Angel ▴ 40
0
votes
0
replies
411
views
maSigPro visualizing individually each plot from each cluster
plot maSigPro Clustering
19 months ago oseias.rf.junior • 0
0
votes
0
replies
664
views
Gviz: set colors for UTRs
plot color Gviz utr
3.0 years ago ginlucks • 0
50 results • Page 1 of 1
Recent ...
Replies
Answer: OrgDb for maize by James W. MacDonald 65k
``` > library(AnnotationHub) > hub <- AnnotationHub() |===========================| 100% snapshotDate(): 2023-10-23 > query(hu…
Comment: Which input file is used for DGEList in EgdeR? by i.atanasoai • 0
Understood, Thank you very much for the reply, very kind.
Comment: Which input file is used for DGEList in EgdeR? by Michael Love 41k
"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Michael Love 41k
These genes are fine. They are just the ones where, by chance, the sample variance is below the sample mean. It happens. DESeq2 brings thes…
Comment: DEG with low counts by Michael Love 41k
These counts are too low, only a few samples above a count of 10. So for typical RNA-seq data that is underpowered to call differences. It…
Votes
Install/Switch between multiple versions of R, Rstudio, and Bioconductor
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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