Showing : ggplot2 • reset
5
votes
11
replies
1.2k
views
Visualization of negative log CPM values
Visualization Normalization ggplot2 edgeR
written 4 months ago by ▴ 20
0
votes
1
reply
357
views
How to add pvalue to boxplot?
boxplot ggplot2
updated 7 months ago by ★ 3.4k • written 7 months ago by ▴ 10
0
votes
0
replies
466
views
GOplots::GOChord with heatmaps?
GOChord ggplot2::geom_polygon() GOplot ggplot2
8 months ago adrija.kalvisa • 0
0
votes
2
replies
513
views
ggplot2 bar plot
R Visualization ggplot2
11 months ago Jitendra ▴ 10
4
votes
6
replies
1.0k
views
How to best visualize multi-level transcriptomics experiment data?
ggplot2 Transcriptomics Visualization R limma
16 months ago mohammedtoufiq91 ▴ 10
0
votes
1
reply
1.1k
views
Adjust color of ellipse in PCA plot from DESeq2 data set
stat_ellipse DESeq2 ggplot2
updated 2.9 years ago by 63k • written 2.9 years ago by • 0
0
votes
3
replies
2.0k
views
ggplot labels with linebreaks inn ggvenn venn diagram
ggvenn ggplot2
3.1 years ago anders.tondell ▴ 30
0
votes
4
replies
3.2k
views
ggplot2 of PCA
software error ggplot2
updated 3.3 years ago by • 0 • written 3.3 years ago by ▴ 20
0
votes
2
replies
1.6k
views
How to adjust and align timepoints on x-axis in the ggplot2
ggplot2 line plot x-axis data frame R
3.8 years ago mohammedtoufiq91 ▴ 10
0
votes
1
reply
542
views
Adding layer to legend in waterfall plot
GenVisR ggplot2 waterfall
3.9 years ago sheneicechang • 0
0
votes
0
replies
554
views
Unable to obtain the line chart with error envelop in ggplot2 and geom_ribbon()
ggplot2 line chart R geom_ribbon()
4.0 years ago mohammedtoufiq91 ▴ 10
12
votes
7
replies
4.0k
views
Plot ggplot2 and ggbio Images Together
ggplot2 ggbio cowplot
updated 4.2 years ago by ★ 1.5k • written 8.3 years ago by ▴ 370
0
votes
0
replies
544
views
How to plot "chromosomewise" "allele frequency" of a "Hybrid" in comparison to its "Inbred parents"
ggplot2 ggplot cmplot
4.5 years ago gens8094 • 0
0
votes
0
replies
528
views
How to plot "chromosomewise" "allele frequency" of a "Hybrid" in comparison to its "Inbred parents"
ggplot cmplot ggplot2
4.5 years ago gens8094 • 0
2
votes
5
replies
3.1k
views
Adding labels on clusters in a t-SNE plot and changing colors
scran scater Rtsne ggplot2 scRNA-Seq
updated 13 months ago by ▴ 60 • written 4.6 years ago by ▴ 50
0
votes
0
replies
1.1k
views
vcf to venn diagram
snps vcf venn diagram ggplot2
4.8 years ago mictadlo ▴ 10
0
votes
1
reply
701
views
plot get overridden rather to overlapped
rsamtools ggplot2 plot
updated 4.8 years ago by 63k • written 4.8 years ago by ▴ 10
1
vote
2
replies
1.4k
views
ggbio won't plot ideogram in R version 3.3.1, ggplot2 version 3.1.0
ggbio ggplot2
4.8 years ago t.fadason ▴ 10
2
votes
2
replies
777
views
aes label in ggbio_1.26.1 with ggplot2_3.0.0
ggbio ggplot2
5.0 years ago Lescai, Francesco ▴ 380
0
votes
1
reply
863
views
display of chromosomes (on the linear scale) and translocations
ggviz ggplot2 gviz circlize Rcircos
5.2 years ago Bogdan ▴ 660
0
votes
0
replies
1.7k
views
ggbio Error: Don't know how to add o to a plot
software error ggbio ggplot2
5.2 years ago zhe ▴ 20
0
votes
2
replies
2.6k
views
Add annotation color bar to ggplot
ggplot2 annotation
updated 5.4 years ago by ▴ 200 • written 5.4 years ago by ▴ 20
5
votes
12
replies
8.0k
views
Combining ComplexHeatmap with other plot types
complexheatmap ggplot2
updated 5.9 years ago by ▴ 240 • written 5.9 years ago by ▴ 10
3
votes
4
replies
3.0k
views
saving a plot as png and also showing inside Rstudio
edger ggplot2
updated 6.0 years ago by ★ 28k • written 6.0 years ago by ▴ 10
6
votes
2
replies
5.5k
views
How is it possible to get a legend outside plotMDS?
edger ggplot2
updated 6.0 years ago by 63k • written 6.0 years ago by ▴ 10
0
votes
1
reply
861
views
Pseudo-coloring DiffBind volcano plot
diffbind chipseq volcanoplot ggplot2
updated 6.0 years ago by ★ 5.0k • written 6.0 years ago by ▴ 60
2
votes
3
replies
1.9k
views
MA plot DiffBind in ggplot2
diffbind ggplot2 r chipseq
updated 6.0 years ago by ★ 5.0k • written 6.1 years ago by • 0
2
votes
0
replies
1.7k
views
Gviz plot combined with multiple ggplot2 plots
gviz gviz-package ggplot2
6.1 years ago christian.aichmueller ▴ 20
1
vote
3
replies
1.6k
views
Error bars on DESeq2 visuals
deseq2 metagenomics phyloseq ggplot2
6.1 years ago lauren.czaplicki • 0
0
votes
2
replies
1.3k
views
ggplots gives errors
rnaseq ggplot2
updated 6.2 years ago by ▴ 20 • written 6.2 years ago by • 0
5
votes
3
replies
1.2k
views
Using BiocStyle with plotly
biocstyle plotly ggplot2
updated 6.2 years ago by ▴ 750 • written 6.2 years ago by ▴ 720
2
votes
2
replies
3.6k
views
How can I visualize Gene Set Enrichment Results from gseGo fun. (clusterProfiler)?
ggplot2 clusterprofiler visualization gseGo
6.5 years ago • updated 2.9 years ago tcalvo ▴ 90
0
votes
1
reply
3.1k
views
an error in ggbio: "Breaks and labels are different lengths"
ggbio ggplot2
6.5 years ago Bogdan ▴ 660
0
votes
1
reply
1.8k
views
ggtree facet_plot question using geom_boxplot to plot abundance data corresponding to tree tips
ggtree ggplot2 phyloseq geom_boxplot facet_plot
updated 6.6 years ago by ★ 1.2k • written 6.6 years ago by • 0
0
votes
2
replies
1.6k
views
Controlling colours assigned to order in DeSeq2 plot in phyloseq
phyloseq color ggplot2
updated 6.6 years ago by 40k • written 6.6 years ago by • 0
0
votes
1
reply
1.1k
views
Metagene: file import and aesthetic customization
metagene R ggplot2
updated 6.6 years ago by ▴ 170 • written 6.6 years ago by ▴ 40
1
vote
3
replies
2.5k
views
Combining LD matrix plot with SNP and gene data with ggplot / ggbio tracks() function
ggplot2 ggbio plot tracks bioconductor
updated 6.7 years ago by 11k • written 6.7 years ago by ▴ 10
0
votes
5
replies
1.3k
views
How to plot benchmark result of R/ Bioconductor package (getting curve or line graph)?
r benchmark performance ggplot2
6.7 years ago Jurat Shahidin ▴ 80
2
votes
4
replies
1.1k
views
ggbio tracks () does not allow "call" class in the "main" slot of the function
ggbio ggplot2 call plot
updated 6.7 years ago by 11k • written 6.7 years ago by ▴ 10
0
votes
2
replies
1.2k
views
tracks () function from ggbio does not allow italic expression in the title
ggbio ggplot2 title typography
7.0 years ago • updated 6.7 years ago oswaldo.lorenzo ▴ 10
0
votes
0
replies
1.4k
views
Select what conditionsto graph in Report tools with Deseq containing multiple conditions
deseq2 ggplot2 reportingtools
6.9 years ago abass.conteh • 0
0
votes
1
reply
833
views
Building a pseudo-network based on correlations
R ggplot2
updated 6.9 years ago by ▴ 20 • written 6.9 years ago by ▴ 20
0
votes
1
reply
1.8k
views
Missing levels in legend using autoplot () + scale_color_manual () functions
ggbio ggplot2 legend bioconductor karyiogram
7.0 years ago oswaldo.lorenzo ▴ 10
1
vote
1
reply
1.4k
views
How to show chromosome position and SNP label at the same time in x axis
ggbio ggplot2 genomics plot
7.1 years ago oswaldo.lorenzo ▴ 10
0
votes
1
reply
2.2k
views
Ideogram not alligned with ggbio and tracks()
ggbio ggplot2
updated 7.1 years ago by ▴ 10 • written 7.4 years ago by ▴ 10
2
votes
3
replies
1.5k
views
ggbio tracks() function handling x axis in the wrong way
ggbio ggplot2 tracks genomics plot
7.1 years ago oswaldo.lorenzo ▴ 10
2
votes
2
replies
1.2k
views
Anyone know how to make a plot like this - I don't even know what it's called.
plot ggplot2
updated 7.2 years ago by ▴ 130 • written 7.2 years ago by ▴ 10
0
votes
2
replies
1.6k
views
displaying UP, DOWN, and NON-regulated genes
ggplot2
7.6 years ago Bogdan ▴ 660
1
vote
1
reply
1.3k
views
ggplot same data, different plots
ggplot2 ggplot plot
updated 7.7 years ago by 63k • written 7.7 years ago by ▴ 50
0
votes
2
replies
1.5k
views
error when using seeFastqPlot
systempiper seeFastqPlot software error ggplot2 geom_histogram
updated 7.7 years ago by ★ 1.7k • written 7.7 years ago by • 0
50 results • Page 1 of 1
Recent ...
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Answer: Deseq2 calculated log2foldchange not consistent with RPM in IP-small RNA-seq by Michael Love 40k
Did you manually calculate RPMs? Try `fpm(dds)` for comparison, as this also uses DESeq2 median ratio scaling.
Comment: collapseReplicates error after tximeta by Michael Love 40k
A note: I've now changed collapseReplicates() to output a loud warning when it is run on a DESeqDataSet (SummarizedExperiment) with more th…
Comment: Suggested package missing from Development version of Bioconductor by shepherl 3.5k
Have you tried reaching out to the maintainers? If they do not fix the package it will remain unavailable and cause ERROR in your package.…
Answer: Batch effect adjust in model matrix by ATpoint ★ 3.4k
Each sample is a different day, that is called "nested", so there is nothing you can do here. Next time do a better experimental design, he…
Comment: Does countsFromAbundance="lengthScaledTPM" produce un-normalized counts? by Michael Love 40k
Oh, I see. If you can't use counts + offset then I prefer lengthScaledTPM to DESeq2, i.e. `txi$counts` to `DESeqDataSetFromMatrix()`. So …
Votes
Comment: Batch correction and repeated measures
batch effect : comBat or blocking in limma ?
Batch correction and repeated measures
Comment: Does countsFromAbundance="lengthScaledTPM" produce un-normalized counts?
Comment: Phenotype effect - building a contrast matrix - grouping vs interaction
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