Showing : heatmap • reset
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Error when trying to create a heatmap with DESeq2
Heatmap RNA-seqanalysis heatmaps DESeq2
updated 24 months ago by ▴ 780 • written 24 months ago by • 0
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0
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1.5k
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WGCNA Heatmap and Export to Cytoscape Not Working
Cytoscape Heatmap heatmaps WGCNA
2.7 years ago gianni.drm • 0
1
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3
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2.1k
views
Interpretation of LRT results
DESeq2 LRT Heatmap
updated 2.1 years ago by 68k • written 3.0 years ago by ▴ 10
3
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2
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3.1k
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Complex Heatmap shows just one color
Heatmap ComplexHeatmap colorRamp
4.5 years ago Assa Yeroslaviz ★ 1.5k
0
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0
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974
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How to overlap heatmaps on Gviz?
Givz heatmap overlap combine information
5.4 years ago kris.petrini • 0
5
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11
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4.3k
views
Heatmap only including DE genes?
heatmap coolmap pheatmap
updated 5.5 years ago by 53k • written 5.5 years ago by ▴ 60
4
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6
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21k
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R studio input style for generating heatmap (RNAseq)
heatmap r studio log2foldchange
updated 5.7 years ago by ★ 13k • written 5.7 years ago by • 0
0
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3
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1.2k
views
how to draw multiple heatmap from GeneOverlap
GeneOverlap multiple figures heatmap
updated 5.7 years ago by 68k • written 5.7 years ago by ▴ 140
0
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6
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2.6k
views
Breaking down the output from plotEigengeneNetworks()
WGCNA Heatmap EigenGeneNetworks
6.0 years ago l.s.wijaya • 0
1
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2
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1.8k
views
Obtain the first gene expression heatmaps from GOexpress package gene ontology enrichment analysis results
GOexpress heatmap gene ontology plot
updated 6.0 years ago by ▴ 350 • written 6.0 years ago by • 0
3
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7
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4.4k
views
Handle missing values in the z-score matrix while plotting heatmap in the ComplexHeatmap
matrix heatmap ComplexHeatmap missing values R
updated 6.1 years ago by ▴ 290 • written 6.1 years ago by ▴ 10
0
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2
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1.9k
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a newbie question on ConsensusClusterPlus
consensusclusterplus heatmap
6.2 years ago niki.nowhere • 0
0
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2
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5.3k
views
Heatmap of selected genes
heatmap DEGs RNAseq DESeq2
updated 6.2 years ago by ▴ 280 • written 6.2 years ago by • 0
2
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3
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2.1k
views
RNAseq and heatmap
deseq2 RNA-seq Heatmap
updated 6.3 years ago by 43k • written 6.3 years ago by ▴ 10
2
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8
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4.3k
views
removing batch effect using DESeq and sva
sva deseq2 batch effect PCA heatmap
updated 6.4 years ago by 43k • written 6.4 years ago by ▴ 10
0
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0
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2.5k
views
Adjusting the size of the visual output from cluster profiler
clusterProfiler heatmap GOAnalysis
6.4 years ago anthony.nash ▴ 20
0
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0
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1.6k
views
Clustering large dataset
HeatMap Cairo Graphics Device Failed to create Cairo backend seqplots
updated 6.6 years ago by 4.2k • written 6.6 years ago by ▴ 450
1
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1
reply
2.0k
views
How to get the order of the gene list and indivdual cluster from the big heatmap made by heatmap2.0?
annotation heatmap
updated 6.7 years ago by 68k • written 6.7 years ago by • 0
0
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0
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990
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Superheat adjusting making left label size
r R heatmap
6.8 years ago coyoung ▴ 10
0
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1
reply
1.7k
views
SC3 how to customize plots ?
SC3 plot consensus marker heatmap
updated 6.9 years ago by ▴ 150 • written 6.9 years ago by • 0
4
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1
reply
3.7k
views
benefits of pearson distance for hierarchical clustering
heatmap.3 heatmap
updated 6.9 years ago by 68k • written 6.9 years ago by ▴ 60
1
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2
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1.4k
views
genes repeated in the heatmap several times(10x) when using limma
limma normalization heatmap design and contrast matrix cancer
updated 7.0 years ago by ★ 1.1k • written 7.0 years ago by • 0
0
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1
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1.4k
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PureCN Solution Heatmap values
PureCN heatmap likelihoods
7.1 years ago twtoal ▴ 10
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4
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1.9k
views
PureCN optimum solution vs heat map
PureCN Solution Heatmap
updated 7.2 years ago by ▴ 130 • written 7.2 years ago by ▴ 10
7
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6
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7.2k
views
scaling data for clustering heat map
edger heatmap clustering differential gene expression rnaseq
updated 7.4 years ago by 53k • written 7.4 years ago by ▴ 60
1
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1
reply
1.3k
views
Row clustering featureAlignedHeatmap function (ChipPeakAnno package)
heatmap chippeakanno
updated 7.5 years ago by ★ 1.3k • written 7.5 years ago by • 0
3
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5
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2.7k
views
DEGs of microarray Data and hierarchical clustering and visualizing using heatmap
limma heatmap DEGs
updated 7.7 years ago by 53k • written 7.7 years ago by ▴ 30
1
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1
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1.6k
views
Including taxa names in heatmap in metagenomeseq
gut microbiome heatmap metagenomeseq
updated 7.8 years ago by ▴ 280 • written 7.8 years ago by • 0
0
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1
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1.8k
views
How to control the size of labels on heatmaps in DiffBind
diffbind labels heatmap
updated 7.9 years ago by ★ 5.2k • written 7.9 years ago by • 0
2
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2
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1.5k
views
Problem with using `GRheatmapData` function in compEpiTools package
compEpiTools error heatmap
updated 8.1 years ago by ▴ 200 • written 8.1 years ago by • 0
0
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1
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1.8k
views
phyloseq heatmap blank after multiple package updates
phyloseq heatmap
updated 8.1 years ago by ★ 13k • written 8.1 years ago by • 0
0
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1
reply
1.9k
views
How to generate heatmap for three groups
rnaseq ruvseq heatmap
updated 8.3 years ago by 68k • written 8.3 years ago by • 0
0
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1
reply
2.5k
views
Unsupervised heatmap use tpm or rlog gave different results
deseq2 tpm heatmap pheatmap
updated 8.4 years ago by 43k • written 8.4 years ago by ▴ 40
0
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2
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6.0k
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DESeq2: how to interpret the heatmap clustering samples
deseq2 rlog transformation heatmap scale
8.6 years ago lina.faller ▴ 10
0
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0
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2.0k
views
use control_condition in heatmap with cummeRbund
cummerbund heatmap
8.6 years ago domenico.somma • 0
6
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3
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7.4k
views
Heatmap Plotting in R
heatmap R bioconductor
10.3 years ago • updated 8.6 years ago Deepak Tanwar ▴ 10
0
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0
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1.8k
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cummeRbund heatmap for specific isoforms (not genes)
cummerbund heatmap isoforms transcript_id
8.6 years ago domenico.somma • 0
1
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2
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2.5k
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Diffbind: how to include all the samples in the heatmap while using the contrast
diffbind heatmap correlation
updated 8.6 years ago by ★ 5.2k • written 8.6 years ago by • 0
0
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1
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1.6k
views
Is it possible to create a Metagenomeseq heatmap with two coloured bars on the top?
metagenomeseq heatmap
updated 8.6 years ago by 68k • written 8.6 years ago by • 0
2
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7
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6.0k
views
Heatmap of a subset of genes
heatmap
written 9.5 years ago by ▴ 40
2
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1
reply
4.4k
views
Assign custom dendrogram to ComplexHeatmap Heatmap object
complexheatmap heatmap.2 dendrogram dendextend heatmap
updated 9.0 years ago by ▴ 200 • written 9.0 years ago by ▴ 680
0
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0
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7.1k
views
Pheatmap: how to use breaks for pheatmap
pheatmap heatmap
9.0 years ago jarod_v6@libero.it ▴ 40
1
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4
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1.7k
views
Methylation profile through chromosome
R heatmap
9.2 years ago Adam • 0
2
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1
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2.1k
views
DiffBind affinity vs occupancy Heatmaps
diffbind heatmap pearsoncorrelation
updated 9.3 years ago by ★ 5.2k • written 9.3 years ago by ▴ 10
0
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8
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2.1k
views
Regarding general understanding of DiffBind
diffbind heatmap
9.4 years ago • updated 9.3 years ago shubhibartaria ▴ 10
5
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2
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18k
views
Complex Heatmap - hide one legend, show 2 - out off three annotations
complexheatmap bioconductor annotation heatmap legend
9.5 years ago • updated 9.4 years ago annkatrin.goepfert ▴ 10
0
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5
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2.4k
views
What color is assigned in heatmap for time series analysis
deseq2 time course heatmap
updated 9.4 years ago by ▴ 10 • written 9.4 years ago by ▴ 10
1
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3
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2.2k
views
DESeq2 with paired data Heatmap
deseq2 heatmap
updated 9.4 years ago by ★ 13k • written 9.4 years ago by • 0
1
vote
2
replies
1.3k
views
What are the expression value of genes/probes in limma results of topTable
Heatmap
updated 9.4 years ago by ★ 29k • written 9.4 years ago by • 0
1
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5
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5.6k
views
Heatmaps with replicates or triplicate data sets with counts to EdgeR, DESeq, or DESeq2
heatmap.2 heatmap edgeR deseq2 deseq
updated 9.5 years ago by 43k • written 9.5 years ago by ▴ 10
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Answer: Using DESeq2 for age prediction by ATpoint ★ 5.0k
The package has no such inbuilt function but you are free to use the vst (or any normalized) counts to train a regression model or classifi…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Aaron already answered your question. If you have an HDF5 file, it will be read in as a `TENxMatrix` object, which isn't actually read in -…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0
Very strange. We have the same package versions. I tried adding the mtx.class, type, and delayed arguments, but it's still making the coun…
Comment: DESeq2 for candidate gene analysis by piffelpaff ▴ 20
thank you so much for answering Dr. Love!
Answer: DESeq2 for candidate gene analysis by Michael Love 43k
Your plan 1 is reasonable. Run DESeq2 on the whole dataset to obtain size factors and moderated dispersion estimates and then extract the u…
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A: Multi-level experiments in Limma
Answer: Should voomWithQualityWeights still be used when the sample-specific weights var
Answer: DESeq2 for candidate gene analysis
DESeq2 for candidate gene analysis
Answer: DESeq2 for candidate gene analysis
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