Showing : Heatmap • reset
6
votes
25
replies
3.7k
views
How to import normalized file (using xps) to limma for differential expressed genes?
xps heatmap limma
updated 8.5 years ago by ★ 3.9k • written 8.5 years ago by ▴ 120
2
votes
10
replies
21k
views
Heatmap with error message: `x' must be a numeric matrix
r heatmap numericmatrix
updated 8.5 years ago by ★ 1.5k • written 8.5 years ago by ▴ 120
7
votes
6
replies
6.2k
views
scaling data for clustering heat map
edger heatmap clustering differential gene expression rnaseq
updated 6.3 years ago by 51k • written 6.3 years ago by ▴ 60
0
votes
5
replies
1.9k
views
What color is assigned in heatmap for time series analysis
deseq2 time course heatmap
updated 8.3 years ago by ▴ 10 • written 8.3 years ago by ▴ 10
1
vote
2
replies
1.2k
views
genes repeated in the heatmap several times(10x) when using limma
limma normalization heatmap design and contrast matrix cancer
updated 5.9 years ago by ★ 1.0k • written 5.9 years ago by • 0
0
votes
8
replies
1.7k
views
Regarding general understanding of DiffBind
diffbind heatmap
8.3 years ago • updated 8.2 years ago shubhibartaria ▴ 10
1
vote
2
replies
2.5k
views
Supervised clustering by sample
hclust heatmap
9.6 years ago rmgreer • 0
2
votes
7
replies
5.2k
views
Heatmap of a subset of genes
heatmap
written 8.4 years ago by ▴ 40
0
votes
2
replies
5.6k
views
Plots and Heat Maps not displaying in RGui Window
plot heatmap graphical rnaseqgene deseqdataset
9.4 years ago greg.mulhearn • 0
8
votes
8
replies
12k
views
Heatmap from DESeq2 DE genes
deseq2 heatmap
updated 9.7 years ago by 67k • written 9.7 years ago by ▴ 90
5
votes
11
replies
3.1k
views
Heatmap only including DE genes?
heatmap coolmap pheatmap
updated 4.4 years ago by 51k • written 4.4 years ago by ▴ 60
9
votes
10
replies
13k
views
Is the following a correct usage of Limma's removeBatchEffect() for clustered heat map generation?
limma removeBatchEffect heatmap clustering
updated 8.7 years ago by ▴ 610 • written 8.7 years ago by ▴ 80
6
votes
3
replies
7.1k
views
Heatmap Plotting in R
heatmap R bioconductor
9.2 years ago • updated 7.5 years ago Deepak Tanwar ▴ 10
1
vote
1
reply
1.4k
views
reactive CellCODE heatmap
cellcode shiny heatmap
updated 8.4 years ago by ▴ 750 • written 8.4 years ago by ▴ 20
1
vote
5
replies
4.6k
views
Heatmaps with replicates or triplicate data sets with counts to EdgeR, DESeq, or DESeq2
heatmap.2 heatmap edgeR deseq2 deseq
updated 8.4 years ago by 42k • written 8.4 years ago by ▴ 10
5
votes
2
replies
14k
views
Complex Heatmap - hide one legend, show 2 - out off three annotations
complexheatmap bioconductor annotation heatmap legend
8.4 years ago • updated 8.3 years ago annkatrin.goepfert ▴ 10
1
vote
2
replies
1.1k
views
What are the expression value of genes/probes in limma results of topTable
Heatmap
updated 8.4 years ago by ★ 28k • written 8.4 years ago by • 0
1
vote
3
replies
1.8k
views
DESeq2 with paired data Heatmap
deseq2 heatmap
updated 8.3 years ago by ★ 13k • written 8.3 years ago by • 0
2
votes
1
reply
1.8k
views
DiffBind affinity vs occupancy Heatmaps
diffbind heatmap pearsoncorrelation
updated 8.2 years ago by ★ 5.2k • written 8.2 years ago by ▴ 10
1
vote
4
replies
1.4k
views
Methylation profile through chromosome
R heatmap
8.1 years ago Adam • 0
2
votes
1
reply
3.8k
views
Assign custom dendrogram to ComplexHeatmap Heatmap object
complexheatmap heatmap.2 dendrogram dendextend heatmap
updated 7.9 years ago by ▴ 200 • written 7.9 years ago by ▴ 660
0
votes
1
reply
1.3k
views
Is it possible to create a Metagenomeseq heatmap with two coloured bars on the top?
metagenomeseq heatmap
updated 7.5 years ago by 67k • written 7.5 years ago by • 0
1
vote
2
replies
2.1k
views
Diffbind: how to include all the samples in the heatmap while using the contrast
diffbind heatmap correlation
updated 7.5 years ago by ★ 5.2k • written 7.5 years ago by • 0
0
votes
2
replies
5.2k
views
DESeq2: how to interpret the heatmap clustering samples
deseq2 rlog transformation heatmap scale
7.5 years ago lina.faller ▴ 10
2
votes
5
replies
5.5k
views
Can I use the WGCNA dendrogram to display a heatmap of gene expression?
wgcna heatmap desq2 clustering
updated 9.4 years ago by ★ 1.5k • written 9.4 years ago by ▴ 250
0
votes
4
replies
2.5k
views
HUgene 2.0 analyses heatmap
hugene20 heatmap affymetrixchip
updated 9.4 years ago by ▴ 130 • written 9.4 years ago by ▴ 10
0
votes
1
reply
2.2k
views
Unsupervised heatmap use tpm or rlog gave different results
deseq2 tpm heatmap pheatmap
updated 7.3 years ago by 42k • written 7.3 years ago by ▴ 40
0
votes
1
reply
1.5k
views
How to generate heatmap for three groups
rnaseq ruvseq heatmap
updated 7.2 years ago by 67k • written 7.2 years ago by • 0
0
votes
1
reply
1.5k
views
phyloseq heatmap blank after multiple package updates
phyloseq heatmap
updated 7.0 years ago by ★ 13k • written 7.0 years ago by • 0
2
votes
2
replies
1.2k
views
Problem with using `GRheatmapData` function in compEpiTools package
compEpiTools error heatmap
updated 7.0 years ago by ▴ 200 • written 7.0 years ago by • 0
0
votes
1
reply
1.5k
views
How to control the size of labels on heatmaps in DiffBind
diffbind labels heatmap
updated 6.8 years ago by ★ 5.2k • written 6.8 years ago by • 0
1
vote
1
reply
1.3k
views
Including taxa names in heatmap in metagenomeseq
gut microbiome heatmap metagenomeseq
updated 6.7 years ago by ▴ 280 • written 6.7 years ago by • 0
3
votes
5
replies
2.3k
views
DEGs of microarray Data and hierarchical clustering and visualizing using heatmap
limma heatmap DEGs
updated 6.6 years ago by 51k • written 6.6 years ago by ▴ 30
1
vote
1
reply
1.1k
views
Row clustering featureAlignedHeatmap function (ChipPeakAnno package)
heatmap chippeakanno
updated 6.4 years ago by ★ 1.3k • written 6.4 years ago by • 0
0
votes
4
replies
1.6k
views
PureCN optimum solution vs heat map
PureCN Solution Heatmap
updated 6.1 years ago by ▴ 130 • written 6.1 years ago by ▴ 10
0
votes
1
reply
1.2k
views
PureCN Solution Heatmap values
PureCN heatmap likelihoods
6.0 years ago twtoal ▴ 10
0
votes
1
reply
1.4k
views
SC3 how to customize plots ?
SC3 plot consensus marker heatmap
updated 5.8 years ago by ▴ 150 • written 5.8 years ago by • 0
4
votes
1
reply
2.8k
views
benefits of pearson distance for hierarchical clustering
heatmap.3 heatmap
updated 5.8 years ago by 67k • written 5.8 years ago by ▴ 50
4
votes
4
replies
9.8k
views
ComplexHeatmap Scale by Row
ComplexHeatmap heatmap
updated 9.3 years ago by 67k • written 9.3 years ago by ▴ 370
1
vote
1
reply
1.5k
views
How to get the order of the gene list and indivdual cluster from the big heatmap made by heatmap2.0?
annotation heatmap
updated 5.6 years ago by 67k • written 5.6 years ago by • 0
0
votes
2
replies
1.3k
views
expression pattern tracking of some defined gene in a microarray by heatmap
heatmap microarray
9.2 years ago Angel ▴ 40
2
votes
3
replies
1.7k
views
RNAseq and heatmap
deseq2 RNA-seq Heatmap
updated 5.2 years ago by 42k • written 5.2 years ago by ▴ 10
2
votes
8
replies
3.7k
views
removing batch effect using DESeq and sva
sva deseq2 batch effect PCA heatmap
updated 5.3 years ago by 42k • written 5.3 years ago by ▴ 10
0
votes
2
replies
4.3k
views
Heatmap of selected genes
heatmap DEGs RNAseq DESeq2
updated 5.2 years ago by ▴ 280 • written 5.2 years ago by • 0
3
votes
7
replies
3.5k
views
Handle missing values in the z-score matrix while plotting heatmap in the ComplexHeatmap
matrix heatmap ComplexHeatmap missing values R
updated 5.0 years ago by ▴ 280 • written 5.0 years ago by ▴ 10
1
vote
2
replies
1.4k
views
Obtain the first gene expression heatmaps from GOexpress package gene ontology enrichment analysis results
GOexpress heatmap gene ontology plot
updated 4.9 years ago by ▴ 350 • written 4.9 years ago by • 0
0
votes
1
reply
7.5k
views
plotting heatmap from DESeqDataSet
deseq2 heatmap
updated 9.1 years ago by 42k • written 9.1 years ago by • 0
0
votes
3
replies
839
views
how to draw multiple heatmap from GeneOverlap
GeneOverlap multiple figures heatmap
updated 4.6 years ago by 67k • written 4.6 years ago by ▴ 140
4
votes
6
replies
19k
views
R studio input style for generating heatmap (RNAseq)
heatmap r studio log2foldchange
updated 4.6 years ago by ★ 13k • written 4.6 years ago by • 0
2
votes
3
replies
4.5k
views
Deseq2. Cluster of an specific list
deseq2 heatmap clustering file list
updated 9.0 years ago by 42k • written 9.0 years ago by • 0
50 results • Page 1 of 1
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Comment: Question on performing ANOVA-like analysis using limma by Gordon Smyth 51k
What does `sampleid` represent? If you use duplicateCorrelation(), then the blocking factor should be subject, it isn't clear from your que…
Answer: Question on performing ANOVA-like analysis using limma by Gordon Smyth 51k
In time course experiments such as this, it is essential to account for baseline variability between subjects, so the second analysis given…
Comment: AffylmGUI does not start wit R 4.4.1 by Gordon Smyth 51k
Glad to hear that you have figured it out. Your experience might help other people with limmaGUI or affylmGUI on MacOS as well.
Answer: rtracklayer accessing UCSC data table not working by James W. MacDonald 67k
The track argument is deprecated now, so you can omit it. ``` > tbl.rmsk <- getTable(ucscTableQuery(mySession, table = "rmsk", range = …
Answer: For feline genome by James W. MacDonald 67k
This support site is meant to help people with specific questions about using Bioconductor software. There is a [vignette for `ROntoTools`]…
Votes
Comment: AffylmGUI does not start wit R 4.4.1
DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)
DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)
Comment: Error in GOmeth function of missMethyl when EPICv2 annotation is used
Answer: unable to access Annotationhub latest record
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