Showing : HeatMap • reset
6
votes
25
replies
3.2k
views
How to import normalized file (using xps) to limma for differential expressed genes?
xps heatmap limma
updated 8.1 years ago by ★ 3.9k • written 8.1 years ago by ▴ 110
5
votes
11
replies
2.5k
views
Heatmap only including DE genes?
heatmap coolmap pheatmap
updated 4.0 years ago by 50k • written 4.0 years ago by ▴ 60
2
votes
10
replies
20k
views
Heatmap with error message: `x' must be a numeric matrix
r heatmap numericmatrix
updated 8.1 years ago by ★ 1.5k • written 8.1 years ago by ▴ 110
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 8.3 years ago by ▴ 610 • written 8.3 years ago by ▴ 80
8
votes
8
replies
12k
views
Heatmap from DESeq2 DE genes
deseq2 heatmap
updated 9.3 years ago by 65k • written 9.3 years ago by ▴ 90
2
votes
8
replies
3.3k
views
removing batch effect using DESeq and sva
sva deseq2 batch effect PCA heatmap
updated 4.9 years ago by 41k • written 4.9 years ago by ▴ 10
0
votes
8
replies
1.4k
views
Regarding general understanding of DiffBind
diffbind heatmap
7.8 years ago shubhibartaria ▴ 10
3
votes
7
replies
3.2k
views
Handle missing values in the z-score matrix while plotting heatmap in the ComplexHeatmap
matrix heatmap ComplexHeatmap missing values R
updated 4.6 years ago by ▴ 260 • written 4.6 years ago by ▴ 10
2
votes
7
replies
4.9k
views
Heatmap of a subset of genes
heatmap
written 8.0 years ago by ▴ 40
4
votes
6
replies
18k
views
R studio input style for generating heatmap (RNAseq)
heatmap r studio log2foldchange
updated 4.2 years ago by ★ 13k • written 4.2 years ago by • 0
7
votes
6
replies
5.7k
views
scaling data for clustering heat map
edger heatmap clustering differential gene expression rnaseq
updated 5.9 years ago by 50k • written 5.9 years ago by ▴ 60
0
votes
6
replies
1.7k
views
Breaking down the output from plotEigengeneNetworks()
WGCNA Heatmap EigenGeneNetworks
4.5 years ago l.s.wijaya • 0
2
votes
5
replies
5.2k
views
Can I use the WGCNA dendrogram to display a heatmap of gene expression?
wgcna heatmap desq2 clustering
updated 9.0 years ago by ★ 1.5k • written 9.0 years ago by ▴ 250
0
votes
5
replies
1.7k
views
What color is assigned in heatmap for time series analysis
deseq2 time course heatmap
updated 7.9 years ago by ▴ 10 • written 7.9 years ago by ▴ 10
3
votes
5
replies
2.1k
views
DEGs of microarray Data and hierarchical clustering and visualizing using heatmap
limma heatmap DEGs
updated 6.2 years ago by 50k • written 6.2 years ago by ▴ 30
1
vote
5
replies
4.2k
views
Heatmaps with replicates or triplicate data sets with counts to EdgeR, DESeq, or DESeq2
heatmap.2 heatmap edgeR deseq2 deseq
updated 8.0 years ago by 41k • written 8.0 years ago by ▴ 10
1
vote
4
replies
1.3k
views
Methylation profile through chromosome
R heatmap
7.7 years ago Adam • 0
4
votes
4
replies
9.2k
views
ComplexHeatmap Scale by Row
ComplexHeatmap heatmap
updated 8.9 years ago by 65k • written 8.9 years ago by ▴ 370
1
vote
4
replies
1.8k
views
Is there a way to align Hi-C half heatmaps to Gviz track?
Gviz Hi-C Heatmap
updated 8.0 years ago by ▴ 260 • written 8.0 years ago by ▴ 120
0
votes
4
replies
1.3k
views
PureCN optimum solution vs heat map
PureCN Solution Heatmap
updated 5.7 years ago by ▴ 130 • written 5.7 years ago by ▴ 10
0
votes
4
replies
2.3k
views
HUgene 2.0 analyses heatmap
hugene20 heatmap affymetrixchip
updated 8.9 years ago by ▴ 130 • written 9.0 years ago by ▴ 10
2
votes
3
replies
4.3k
views
Deseq2. Cluster of an specific list
deseq2 heatmap clustering file list
updated 8.6 years ago by 41k • written 8.6 years ago by • 0
0
votes
3
replies
684
views
how to draw multiple heatmap from GeneOverlap
GeneOverlap multiple figures heatmap
updated 4.2 years ago by 65k • written 4.2 years ago by ▴ 140
2
votes
3
replies
1.6k
views
RNAseq and heatmap
deseq2 RNA-seq Heatmap
updated 4.8 years ago by 41k • written 4.8 years ago by ▴ 10
1
vote
3
replies
1.6k
views
DESeq2 with paired data Heatmap
deseq2 heatmap
updated 7.9 years ago by ★ 13k • written 7.9 years ago by • 0
0
votes
3
replies
912
views
Interpretation of LRT results
DESeq2 LRT Heatmap
updated 6 months ago by 65k • written 17 months ago by ▴ 10
6
votes
3
replies
6.9k
views
Heatmap Plotting in R
heatmap R bioconductor
8.8 years ago • updated 7.1 years ago Deepak Tanwar ▴ 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
2
replies
1.2k
views
a newbie question on ConsensusClusterPlus
consensusclusterplus heatmap
4.7 years ago niki.nowhere • 0
3
votes
2
replies
2.0k
views
Complex Heatmap shows just one color
Heatmap ComplexHeatmap colorRamp
3.0 years ago Assa Yeroslaviz ★ 1.5k
0
votes
2
replies
4.0k
views
Heatmap of selected genes
heatmap DEGs RNAseq DESeq2
updated 4.7 years ago by ▴ 270 • 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
1
vote
2
replies
2.0k
views
Diffbind: how to include all the samples in the heatmap while using the contrast
diffbind heatmap correlation
updated 7.1 years ago by ★ 5.1k • written 7.1 years ago by • 0
0
votes
2
replies
4.8k
views
DESeq2: how to interpret the heatmap clustering samples
deseq2 rlog transformation heatmap scale
7.1 years ago lina.faller ▴ 10
1
vote
2
replies
1.0k
views
genes repeated in the heatmap several times(10x) when using limma
limma normalization heatmap design and contrast matrix cancer
updated 5.5 years ago by ★ 1.0k • written 5.5 years ago by • 0
0
votes
2
replies
1.2k
views
Error in heatmap()
heatmap
updated 8.3 years ago by 65k • written 8.3 years ago by • 0
2
votes
2
replies
1.1k
views
Problem with using `GRheatmapData` function in compEpiTools package
compEpiTools error heatmap
updated 6.6 years ago by ▴ 200 • written 6.6 years ago by • 0
0
votes
2
replies
1.2k
views
expression pattern tracking of some defined gene in a microarray by heatmap
heatmap microarray
8.8 years ago Angel ▴ 40
1
vote
2
replies
2.4k
views
Supervised clustering by sample
hclust heatmap
9.2 years ago rmgreer • 0
1
vote
2
replies
976
views
What are the expression value of genes/probes in limma results of topTable
Heatmap
updated 7.9 years ago by ★ 28k • written 7.9 years ago by • 0
5
votes
2
replies
13k
views
Complex Heatmap - hide one legend, show 2 - out off three annotations
complexheatmap bioconductor annotation heatmap legend
8.0 years ago • updated 7.8 years ago annkatrin.goepfert ▴ 10
0
votes
1
reply
635
views
Error when trying to create a heatmap with DESeq2
Heatmap RNA-seqanalysis heatmaps DESeq2
updated 5 months ago by ▴ 780 • written 5 months ago by • 0
0
votes
1
reply
1.3k
views
Larger values masking others for OmicCircos heatmap
differential gene expression heatmap Circos omiccircos
9.3 years ago Peter.Wood • 0
0
votes
1
reply
7.2k
views
plotting heatmap from DESeqDataSet
deseq2 heatmap
updated 8.7 years ago by 41k • written 8.7 years ago by • 0
0
votes
1
reply
2.4k
views
Display subset of rownames in large heatmap?
heatmap rownames genes
8.6 years ago johnlee.johnson • 0
1
vote
1
reply
1.3k
views
reactive CellCODE heatmap
cellcode shiny heatmap
updated 8.0 years ago by ▴ 750 • written 8.0 years ago by ▴ 20
2
votes
1
reply
1.5k
views
DiffBind affinity vs occupancy Heatmaps
diffbind heatmap pearsoncorrelation
updated 7.8 years ago by ★ 5.1k • written 7.8 years ago by ▴ 10
2
votes
1
reply
3.5k
views
Assign custom dendrogram to ComplexHeatmap Heatmap object
complexheatmap heatmap.2 dendrogram dendextend heatmap
updated 7.5 years ago by ▴ 200 • written 7.5 years ago by ▴ 660
0
votes
1
reply
1.1k
views
Is it possible to create a Metagenomeseq heatmap with two coloured bars on the top?
metagenomeseq heatmap
updated 7.1 years ago by 65k • written 7.1 years ago by • 0
0
votes
1
reply
2.1k
views
Unsupervised heatmap use tpm or rlog gave different results
deseq2 tpm heatmap pheatmap
updated 6.9 years ago by 41k • written 6.9 years ago by ▴ 40
50 results • Page 1 of 1
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Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error by James W. MacDonald 65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Comment: get BM error by Fara • 0
Thank you for your response. The primary reason for translating Ensembl IDs into Entrez Gene IDs is to perform KEGG (Kyoto Encyclopedia of…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by James W. MacDonald 65k
That's weird. I don't have any problem at all generating the `OrgDb` on my box. How big is the gene2pubmed.gz file? I get this: ``` gzip -…
Answer: get BM error by James W. MacDonald 65k
The genes you present are orthologous mappings from D. rerio to other teleost fishes, so it is probably going to be difficult to map to NCB…
Votes
Answer: get BM error
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
Comment: Different Shrunk Log2FC according with reference
Reproducibility issue with scran together with lapply and BiocParallel
C: SGSeq: moving toward diffex from SGSeq analysis
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