Showing : heatmap • reset
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638
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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
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0
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801
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WGCNA Heatmap and Export to Cytoscape Not Working
Cytoscape Heatmap heatmaps WGCNA
14 months ago gianni.drm • 0
0
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3
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913
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Interpretation of LRT results
DESeq2 LRT Heatmap
updated 6 months ago by 65k • written 17 months ago by ▴ 10
3
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2
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2.0k
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Complex Heatmap shows just one color
Heatmap ComplexHeatmap colorRamp
3.0 years ago Assa Yeroslaviz ★ 1.5k
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0
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625
views
How to overlap heatmaps on Gviz?
Givz heatmap overlap combine information
3.9 years ago kris.petrini • 0
5
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11
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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
4
votes
6
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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
0
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3
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685
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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
0
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6
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1.7k
views
Breaking down the output from plotEigengeneNetworks()
WGCNA Heatmap EigenGeneNetworks
4.5 years ago l.s.wijaya • 0
1
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2
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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
3
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7
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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
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2
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1.2k
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a newbie question on ConsensusClusterPlus
consensusclusterplus heatmap
4.7 years ago niki.nowhere • 0
0
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2
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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
2
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3
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1.6k
views
RNAseq and heatmap
deseq2 RNA-seq Heatmap
updated 4.8 years ago by 41k • written 4.8 years ago by ▴ 10
2
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8
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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
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0
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1.9k
views
Adjusting the size of the visual output from cluster profiler
clusterProfiler heatmap GOAnalysis
4.9 years ago anthony.nash ▴ 20
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0
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1.3k
views
Clustering large dataset
HeatMap Cairo Graphics Device Failed to create Cairo backend seqplots
updated 5.1 years ago by 3.8k • written 5.1 years ago by ▴ 450
1
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1
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1.3k
views
How to get the order of the gene list and indivdual cluster from the big heatmap made by heatmap2.0?
annotation heatmap
updated 5.2 years ago by 65k • written 5.2 years ago by • 0
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0
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633
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Superheat adjusting making left label size
r R heatmap
5.3 years ago coyoung ▴ 10
4
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1
reply
2.4k
views
benefits of pearson distance for hierarchical clustering
heatmap.3 heatmap
updated 5.4 years ago by 65k • written 5.4 years ago by ▴ 50
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1
reply
1.3k
views
SC3 how to customize plots ?
SC3 plot consensus marker heatmap
updated 5.4 years ago by ▴ 150 • written 5.4 years ago by • 0
1
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2
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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
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1
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999
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PureCN Solution Heatmap values
PureCN heatmap likelihoods
5.6 years ago twtoal ▴ 10
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4
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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
7
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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
1
vote
1
reply
953
views
Row clustering featureAlignedHeatmap function (ChipPeakAnno package)
heatmap chippeakanno
updated 6.0 years ago by ★ 1.3k • written 6.0 years ago by • 0
3
votes
5
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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
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1
reply
1.1k
views
Including taxa names in heatmap in metagenomeseq
gut microbiome heatmap metagenomeseq
updated 6.3 years ago by ▴ 280 • written 6.3 years ago by • 0
0
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1
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1.4k
views
How to control the size of labels on heatmaps in DiffBind
diffbind labels heatmap
updated 6.4 years ago by ★ 5.1k • written 6.4 years ago by • 0
2
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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
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1
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1.3k
views
phyloseq heatmap blank after multiple package updates
phyloseq heatmap
updated 6.6 years ago by ★ 13k • written 6.6 years ago by • 0
0
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1
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1.2k
views
How to generate heatmap for three groups
rnaseq ruvseq heatmap
updated 6.8 years ago by 65k • written 6.8 years ago by • 0
0
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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
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0
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1.8k
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use control_condition in heatmap with cummeRbund
cummerbund heatmap
7.1 years ago domenico.somma • 0
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0
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1.5k
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cummeRbund heatmap for specific isoforms (not genes)
cummerbund heatmap isoforms transcript_id
7.1 years ago domenico.somma • 0
0
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2
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4.8k
views
DESeq2: how to interpret the heatmap clustering samples
deseq2 rlog transformation heatmap scale
7.1 years ago lina.faller ▴ 10
1
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2
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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
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1
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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
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
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0
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6.4k
views
Pheatmap: how to use breaks for pheatmap
pheatmap heatmap
7.5 years ago jarod_v6@libero.it ▴ 40
1
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4
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1.3k
views
Methylation profile through chromosome
R heatmap
7.7 years ago Adam • 0
2
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1
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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
0
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8
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1.4k
views
Regarding general understanding of DiffBind
diffbind heatmap
7.8 years ago shubhibartaria ▴ 10
0
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5
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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
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3
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1.6k
views
DESeq2 with paired data Heatmap
deseq2 heatmap
updated 7.9 years ago by ★ 13k • written 7.9 years ago by • 0
1
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2
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977
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
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2
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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
1
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5
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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
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
7
replies
4.9k
views
Heatmap of a subset of genes
heatmap
written 8.0 years ago by ▴ 40
50 results • Page 1 of 1
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Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by Michael Love 41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10
With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Answer: 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…
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Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
C: when to apply quantile normalization with voom in limma/voom framework with RNA-
A: How to know if I should use voomWithQualityWeights() or not?
A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom
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