Showing : ggplot2 • reset
12
votes
7
replies
4.4k
views
Plot ggplot2 and ggbio Images Together
ggplot2 ggbio cowplot
updated 4.7 years ago by ★ 1.5k • written 8.9 years ago by ▴ 370
6
votes
2
replies
6.3k
views
How is it possible to get a legend outside plotMDS?
edger ggplot2
updated 6.5 years ago by 65k • written 6.5 years ago by ▴ 10
5
votes
12
replies
10k
views
Combining ComplexHeatmap with other plot types
complexheatmap ggplot2
updated 6.4 years ago by ▴ 260 • written 6.4 years ago by ▴ 10
5
votes
11
replies
2.9k
views
Visualization of negative log CPM values
Visualization Normalization ggplot2 edgeR
written 11 months ago by ▴ 20
5
votes
3
replies
1.5k
views
Using BiocStyle with plotly
biocstyle plotly ggplot2
updated 6.8 years ago by ▴ 750 • written 6.8 years ago by ▴ 730
4
votes
6
replies
1.4k
views
How to best visualize multi-level transcriptomics experiment data?
ggplot2 Transcriptomics Visualization R limma
23 months ago mohammedtoufiq91 ▴ 10
3
votes
4
replies
2.7k
views
Bioconductor vignette on Time course experiments only describes how to plot the the gene with the smallest p-value. How can I plot specific genes of …
timecourse time course rna-seq deseq2 ggplot2
8.6 years ago moldach ▴ 20
3
votes
4
replies
3.4k
views
saving a plot as png and also showing inside Rstudio
edger ggplot2
updated 6.5 years ago by ★ 28k • written 6.5 years ago by ▴ 10
2
votes
5
replies
3.8k
views
Adding labels on clusters in a t-SNE plot and changing colors
scran scater Rtsne ggplot2 scRNA-Seq
updated 20 months ago by ▴ 60 • written 5.2 years ago by ▴ 50
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
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
2
votes
2
replies
957
views
aes label in ggbio_1.26.1 with ggplot2_3.0.0
ggbio ggplot2
5.6 years ago Lescai, Francesco ▴ 380
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
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 65k • written 9.4 years ago by ▴ 20
2
votes
0
replies
1.9k
views
Gviz plot combined with multiple ggplot2 plots
gviz gviz-package ggplot2
6.7 years ago christian.aichmueller ▴ 20
2
votes
3
replies
2.1k
views
MA plot DiffBind in ggplot2
diffbind ggplot2 r chipseq
updated 6.6 years ago by ★ 5.2k • written 6.6 years ago by • 0
2
votes
2
replies
4.3k
views
How can I visualize Gene Set Enrichment Results from gseGo fun. (clusterProfiler)?
ggplot2 clusterprofiler visualization gseGo
7.0 years ago • updated 3.4 years ago tcalvo ▴ 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
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
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
1
vote
2
replies
1.6k
views
ggbio won't plot ideogram in R version 3.3.1, ggplot2 version 3.1.0
ggbio ggplot2
5.4 years ago t.fadason ▴ 10
1
vote
1
reply
1.8k
views
ggplot2 functions not inheriting?
ggplot2
8.3 years ago andrew.j.skelton73 ▴ 370
1
vote
3
replies
1.9k
views
Error bars on DESeq2 visuals
deseq2 metagenomics phyloseq ggplot2
6.7 years ago lauren.czaplicki • 0
1
vote
5
replies
612
views
Mixed up sample info with plotPCA
plotMA ggplot2 plotPCA DESeq2
updated 6 months ago by 41k • written 6 months ago by • 0
1
vote
4
replies
2.4k
views
Cannot get ggbio autoplot to run successfully on R 3.2 (3.2.2 or 3.2.3)
ggbio ggplot2 autoplot bioconductor gene models
updated 8.3 years ago by ▴ 10 • written 8.3 years ago by ▴ 10
1
vote
2
replies
2.7k
views
gene expression visualization: lineplot with ggplot2
ggplot2 lineplot visualization
updated 8.9 years ago by ▴ 180 • written 8.9 years ago by ▴ 130
0
votes
1
reply
693
views
Adding layer to legend in waterfall plot
GenVisR ggplot2 waterfall
4.5 years ago sheneicechang • 0
0
votes
2
replies
1.8k
views
How to adjust and align timepoints on x-axis in the ggplot2
ggplot2 line plot x-axis data frame R
4.4 years ago mohammedtoufiq91 ▴ 10
0
votes
4
replies
3.9k
views
ggplot2 of PCA
software error ggplot2
updated 3.8 years ago by • 0 • written 3.8 years ago by ▴ 20
0
votes
3
replies
2.5k
views
ggplot labels with linebreaks inn ggvenn venn diagram
ggvenn ggplot2
3.6 years ago anders.tondell ▴ 30
0
votes
1
reply
1.4k
views
Adjust color of ellipse in PCA plot from DESeq2 data set
stat_ellipse DESeq2 ggplot2
updated 3.5 years ago by 65k • written 3.5 years ago by • 0
0
votes
2
replies
854
views
ggplot2 bar plot
R Visualization ggplot2
18 months ago Jitendra ▴ 10
0
votes
0
replies
939
views
GOplots::GOChord with heatmaps?
GOChord ggplot2::geom_polygon() GOplot ggplot2
15 months ago adrija.kalvisa • 0
0
votes
1
reply
559
views
How to add pvalue to boxplot?
boxplot ggplot2
updated 14 months ago by ★ 4.0k • written 14 months ago by ▴ 10
0
votes
1
reply
955
views
Building a pseudo-network based on correlations
R ggplot2
updated 7.5 years ago by ▴ 20 • written 7.5 years ago by ▴ 20
0
votes
7
replies
1.5k
views
Graphics API Version Mismatch Error with DESeq2 and ggplot2 in RStudio on Ubuntu 22.04
error RStudio ggplot2 DESeq2
updated 5 months ago by 65k • written 5 months ago by • 0
0
votes
1
reply
1.5k
views
Newbie - Adding Labels to Individual Genes with ggbio?
r ggbio ggplot2 dnaseq genomicranges
updated 8.8 years ago by ▴ 130 • written 8.8 years ago by • 0
0
votes
2
replies
2.9k
views
barplot with ggplot2 for gene expression
ggplot2 barplot gene expression gene expression
updated 8.7 years ago by 65k • written 8.7 years ago by ▴ 130
0
votes
1
reply
1.4k
views
ggbio package only works with h19 genome
ggbio ggplot2
updated 8.5 years ago by 65k • written 8.5 years ago by ▴ 10
0
votes
0
replies
909
views
line colors plotRangesLinkedToData
ggbio ggplot2 dexseq
8.4 years ago Alejandro Reyes ★ 1.9k
0
votes
2
replies
1.6k
views
error when using seeFastqPlot
systempiper seeFastqPlot software error ggplot2 geom_histogram
updated 8.3 years ago by ★ 1.7k • written 8.3 years ago by • 0
0
votes
2
replies
1.8k
views
displaying UP, DOWN, and NON-regulated genes
ggplot2
8.2 years ago Bogdan ▴ 670
0
votes
1
reply
2.4k
views
Ideogram not alligned with ggbio and tracks()
ggbio ggplot2
updated 7.6 years ago by ▴ 10 • written 8.0 years ago by ▴ 10
0
votes
1
reply
2.0k
views
Missing levels in legend using autoplot () + scale_color_manual () functions
ggbio ggplot2 legend bioconductor karyiogram
7.6 years ago oswaldo.lorenzo ▴ 10
0
votes
2
replies
1.4k
views
tracks () function from ggbio does not allow italic expression in the title
ggbio ggplot2 title typography
7.6 years ago • updated 7.3 years ago oswaldo.lorenzo ▴ 10
0
votes
0
replies
1.6k
views
Select what conditionsto graph in Report tools with Deseq containing multiple conditions
deseq2 ggplot2 reportingtools
7.5 years ago abass.conteh • 0
0
votes
5
replies
1.4k
views
How to plot benchmark result of R/ Bioconductor package (getting curve or line graph)?
r benchmark performance ggplot2
7.3 years ago Jurat Shahidin ▴ 80
0
votes
1
reply
1.3k
views
Metagene: file import and aesthetic customization
metagene R ggplot2
updated 7.2 years ago by ▴ 170 • written 7.2 years ago by ▴ 40
0
votes
2
replies
1.8k
views
Controlling colours assigned to order in DeSeq2 plot in phyloseq
phyloseq color ggplot2
updated 7.1 years ago by 41k • written 7.2 years ago by • 0
0
votes
1
reply
2.0k
views
ggtree facet_plot question using geom_boxplot to plot abundance data corresponding to tree tips
ggtree ggplot2 phyloseq geom_boxplot facet_plot
updated 7.1 years ago by ★ 1.2k • written 7.1 years ago by • 0
50 results • Page 1 of 1
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Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
Are you commenting on the OP's question, or adding a different question? If the latter, please start a new post rather than piggybacking on…
Answer: Math expression in shapeCustom legend in EnhancedVolcano by James W. MacDonald 65k
Use `bquote`. See section 4.6 in [the vignette][1]. [1]: https://bioconductor.org/packages/release/bioc/vignettes/EnhancedVolcano/in…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350
I was thinking about removing unwanted variations at the sample level (ie a transformation shared across genes) not at the gene level. Corr…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
That's an assumption used for normalization of a sample, not an assumption you can use for an individual model. We always normalize to atte…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350
Is useless the assumption that the majority of genes have no variation in expression (bearing in mind that they are distributed over the en…
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biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
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