Showing : heatmap.2 • reset
4
votes
8
replies
7.9k
views
Scaling genes to have unit variance for clustering / heatmaps with DESeq2
deseq2 heatmap.2 bicluster pheatmap
updated 6.5 years ago by 41k • written 8.6 years ago by ▴ 10
0
votes
7
replies
4.9k
views
Visualization of rownames in the heatmap.2 function for selected DE genes of a microarray dataset
heatmap.2 gplots differential gene expression visualization
9.1 years ago svlachavas ▴ 830
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
0
votes
4
replies
6.4k
views
Sample-to-sample distance matrix using heatmap.2
heatmap.2 gplots DESeq2
6.6 years ago Jane Merlevede ▴ 90
1
vote
3
replies
2.2k
views
How to combine replicates creating heatmap?
deseq2 edgeR heatmap.2
updated 7.5 years ago by 41k • written 7.5 years ago by ▴ 50
5
votes
3
replies
12k
views
Interpreting heatmap in DESEQ2
deseq2 heatmap.2
updated 6.1 years ago by ▴ 150 • written 6.1 years ago by • 0
2
votes
2
replies
3.8k
views
ColSideColors set by rows for heatmap.2 in RStudio
rstudio heatmap.2
updated 5.7 years ago by 65k • written 5.7 years ago by • 0
1
vote
2
replies
2.5k
views
R crash when matrix nrows exceeds 45000 using pheatmap/heatmap.2
pheatmap heatmap.2
8.1 years ago John ▴ 30
0
votes
2
replies
1.4k
views
Possible construction of heatmap for clustering only genes for different treatments and not samples
heatmap.2 clustering common DEG genes bioconductor
updated 8.8 years ago by 65k • written 8.8 years ago by ▴ 830
0
votes
2
replies
1.2k
views
gene names disapper from heatmap.2 after adding gene descripton
heatmap.2 edger
6.5 years ago mictadlo ▴ 10
1
vote
2
replies
10k
views
Use of various distance measures and clustering methods in heatmap creation
gplots heatmap.2 bioconductor pearsoncorrelation average
8.8 years ago svlachavas ▴ 830
1
vote
1
reply
502
views
Add 'ColSideColors' using 'heatmap.2' function
ColSideColors heatmaps heatmap.2
updated 12 months ago by ▴ 80 • written 13 months ago by ▴ 10
0
votes
1
reply
1.5k
views
Error when trying to plot sample distance from and assay object generated with DESeq2
deseq2 heatmap.2
updated 8.9 years ago by 41k • written 8.9 years ago by ▴ 30
1
vote
1
reply
1.6k
views
heatmap2 error key
heatmap.2
updated 8.0 years ago by 65k • written 8.0 years ago by ▴ 90
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
1.7k
views
heatmap.2 reorder branches
heatmap.2 hclust reorderfun
updated 7.2 years ago by 65k • written 7.2 years ago by ▴ 360
8
votes
1
reply
9.2k
views
extracting the genes associated with the clusters
heatmap.2 pheatmap complexheatmap heatplus
updated 7.1 years ago by ▴ 680 • written 7.1 years ago by ▴ 670
0
votes
1
reply
788
views
RPKM representation in heatmap is not accurate
heatmap.2 z-score
updated 5.8 years ago by ★ 28k • written 5.8 years ago by • 0
0
votes
1
reply
686
views
collided row names in heatmap.2
heatmap.2 genefilter deseq2
updated 2.7 years ago by 65k • written 2.7 years ago by • 0
1
vote
0
replies
2.6k
views
heatmap.2() making columns narrower to make them look like microarray?
heatmap.2 pheatmap
8.6 years ago AJC ▴ 10
0
votes
0
replies
1.6k
views
Sub clustering from hierarchical cluster used to make heat map of gene expression data
heatmap.2 hierarchical clustering microarray RNA seq DEG
6.2 years ago lawarde.ankita1 ▴ 30
0
votes
0
replies
2.6k
views
Problem with the colors in the heatmap.2 function and the color key values range
gplots heatmap.2 affymetrix microarrays color key
8.6 years ago svlachavas ▴ 830
22 results • Page 1 of 1
Recent ...
Replies
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks by ATpoint ★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Votes
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Awards • All
Popular Question to James W. MacDonald 65k
Scholar to Michael Love 41k
Supporter to JKim • 0
Popular Question to Gordon Smyth 50k
Popular Question to Chris • 0
Locations • All
United States, 5 minutes ago
Sweden, 8 minutes ago
United States, 9 minutes ago
France, 13 minutes ago
The Netherlands, 17 minutes ago
Traffic: 1123 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6