Showing : desEQ2 • reset
0
votes
0
replies
10
views
GSVA function
DESeq2 GSVA ssGSEA
1 hour ago michelafrancesconi8 • 0
0
votes
1
reply
36
views
Normalisation using clinical traits in RNA seq using DESeq2
DESeq2 clinicaltraits Normalization batchnormalisation
updated 6 hours ago by ★ 4.2k • written 6 hours ago by • 0
0
votes
2
replies
73
views
Volcano plot of scRNA-seq data not "centered"
DESeq2
updated 17 hours ago by 42k • written 18 hours ago by • 0
1
vote
8
replies
145
views
Slightly different count plots from R and spreadsheet
DESeq2 ggplot2
2 days ago • updated 1 day ago boczniak767 ▴ 720
1
vote
3
replies
145
views
LRT, more than two conditions and pairwise comparisons
DESeq2
updated 3 days ago by 66k • written 4 days ago by ▴ 720
0
votes
6
replies
604
views
Numerical differences in DESeq2 output depending on different design matrix construction
DESeq2
7 days ago • updated 4 days ago Ken C • 0
2
votes
4
replies
218
views
DESeq2- Mysterious interaction suppresses DEGs
DESeq2 PCAplot RNA-Seq DesignModel
updated 4 days ago by 42k • written 7 days ago by • 0
4
votes
9
replies
323
views
Can DESeq2 rlog normalized matrix reflects time course result directly?
DESeq2 timecoursedata GeneExpression
updated 8 days ago by ★ 4.2k • written 9 days ago by • 0
0
votes
3
replies
159
views
Assymetric MA plot with no overall trend
DESeq2 DifferentialExpression
updated 9 days ago by 42k • written 9 days ago by • 0
0
votes
1
reply
121
views
normalization across different species for DESeq2 analysis
DESeq2 normalization Normalization acrossspecies
updated 10 days ago by 42k • written 11 days ago by • 0
0
votes
8
replies
569
views
Can I trust the differential expression analysis when the two groups overlap on the PCA?
DESeq2 pcaExplorer
updated 9 days ago by ▴ 30 • written 10 days ago by • 0
1
vote
2
replies
274
views
How can I create a eigencorplot of pca created from deseq2 object with PCAtools
DESeq2 eigencorplot PCAtools
10 days ago • updated 7 days ago BioinfGuru ▴ 30
0
votes
1
reply
197
views
Differential gene expression analysis results
DESeq2 DifferentialExpression
updated 14 days ago by ★ 4.2k • written 14 days ago by • 0
0
votes
1
reply
121
views
normalization using Deseq2
DESeq2 rnaseqGene Normalization
updated 15 days ago by ★ 4.2k • written 15 days ago by • 0
2
votes
7
replies
449
views
deseq2 results
DESeq2 DifferentialExpression rnaseqGene DifferentialRegulation
16 days ago • updated 13 days ago sajadahmad41454 • 0
1
vote
1
reply
199
views
Handling multiple differential expression comparisons
DESeq2
updated 19 days ago by 42k • written 20 days ago by ▴ 10
0
votes
6
replies
314
views
Once again a "Model matrix not full rank"
DESeq2 design coldata
updated 20 days ago by ★ 1.4k • written 21 days ago by ▴ 130
2
votes
3
replies
270
views
Too many significant genes when integrating gtex and tcga
RNA-seq DESeq2
updated 19 days ago by ★ 4.2k • written 20 days ago by • 0
0
votes
2
replies
183
views
DESeq2 v1.35.0
DESeq2
updated 22 days ago by 42k • written 22 days ago by • 0
0
votes
2
replies
220
views
Deseq2 and Normalization of RNA sequencing data
DESeq2
22 days ago • updated 21 days ago kcarey • 0
0
votes
3
replies
241
views
Differences in differential analysis methods for RNA-Seq
DESeq2 StatisticalMethod Proteomics DifferentialExpression RNASeq
updated 22 days ago by ★ 4.2k • written 22 days ago by • 0
1
vote
3
replies
321
views
Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call when trying to subset pheatmap
DESeq2
updated 16 days ago by ★ 4.2k • written 22 days ago by • 0
0
votes
3
replies
310
views
log2FoldChange value is way too different when compared with counts(dds)
DESeq2
updated 22 days ago by 42k • written 23 days ago by • 0
1
vote
1
reply
162
views
Fold change calculation in Diffbind vs. DESEQ2?
DiffBind ChIPSeqData DESeq2
updated 24 days ago by 42k • written 24 days ago by • 0
0
votes
2
replies
179
views
Timecourse RNASeq analysis
DESeq2 ImpulseDE2 timecour timecoursedata moanin
24 days ago • updated 21 days ago Aurora • 0
0
votes
1
reply
144
views
Padj "NA" with thousands of low count although the raw read counts are quite large
DESeq2
updated 24 days ago by 42k • written 24 days ago by • 0
0
votes
1
reply
143
views
putting my own expression data in deseq2
DESeq2
updated 24 days ago by ★ 4.2k • written 24 days ago by • 0
3
votes
3
replies
279
views
DESeq2: Contrast for two conditions combined versus one condition (A+B_vs_C)
DESeq2 contrasts
updated 25 days ago by ★ 4.2k • written 25 days ago by ▴ 10
0
votes
2
replies
233
views
PCA plot suggestions
DESeq2 PCAtools
updated 28 days ago by 42k • written 29 days ago by • 0
1
vote
3
replies
261
views
Deseq2. decontXcounts not integers. Useful alternative?
DESeq2 celda
updated 28 days ago by 42k • written 28 days ago by • 0
2
votes
9
replies
450
views
Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
DESeq2 RUVSeq RUVseq BatchEffect DES
updated 28 days ago by 66k • written 29 days ago by • 0
0
votes
1
reply
171
views
DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
DESeq2 RNAseq
updated 29 days ago by 42k • written 4 weeks ago by • 0
1
vote
4
replies
367
views
Opposite sign of LFC in count plots of DEGs (DESeq2)
DESeq2
4 weeks ago • updated 28 days ago winwater0928 • 0
0
votes
8
replies
416
views
DESeq2 output used for PCA plot on R studio
DESeq2 RSTUDIO PCAtools
updated 29 days ago by ★ 1.4k • written 4 weeks ago by • 0
1
vote
2
replies
775
views
DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
DESeq2
5 weeks ago • updated 28 days ago Patadù ▴ 10
1
vote
4
replies
538
views
DEseq2 coefficient
DESeq2 coefficient
3 months ago • updated 22 days ago JKim • 0
0
votes
2
replies
1.5k
views
How to use spike-in information (sequences from another species) with DESeq2::DESeq()
DESeq2 SpikeIn Normalization
updated 14 days ago by • 0 • written 16 months ago by ▴ 10
6
votes
19
replies
2.6k
views
DESeq2 a lot of genes showing up as differentially expressed that only have 1 sample with any expression
deseq2
updated 24 days ago by • 0 • written 4.7 years ago by ▴ 10
38 results • Page 1 of 1
Recent ...
Replies
Comment: Cannot install oligo on Fedora by Guido Hooiveld ★ 4.0k
Aha, that is a good one! Starting from release 40, as I just found out, Fedora apparently is not including/using `zlib` as such anymore, b…
Comment: Cannot install oligo on Fedora by James W. MacDonald 66k
What version of zlib are you running? I can compile with 1.2.7
Comment: SingleR Label.Ont by Anna • 0
It makes me happy that I have finally found a trusted and safe online casino in Australia. I read a lot of different additional information…
Answer: Error when running topGO with KS statistic and elim agorithm by James W. MacDonald 66k
You'll probably have to figure this out yourself. That error is coming from a non-exported function called `.sigGroups.elim`, which iterate…
Answer: Cluster columns in Pheatmap by James W. MacDonald 66k
This support site is meant for helping people with Bioconductor packages, and `pheatmap` isn't one of them, so you should be posting on bio…
Votes
Answer: How to run allelic imbalance in apeglm
Answer: Not able to install any Bioconductor 3.18 package [unable to access index]
Answer: Documenting resources in an `ExperimentHub` package?
Answer: Not able to install any Bioconductor 3.18 package [unable to access index]
Seurat/DESeq2 - single cell RNA-seq differential expression
Awards • All
Popular Question to kevin.rue ▴ 350
Popular Question to Wei Shi ★ 3.6k
Popular Question to Gordon Smyth 50k
Popular Question to jovel_juan ▴ 30
Scholar to ATpoint ★ 4.2k
Locations • All
United States, 7 minutes ago
Iran, 21 minutes ago
EMBL Heidelberg, 27 minutes ago
United Kingdom, 30 minutes ago
Denver, University of Colorado Anschutz Medical Campus, 31 minutes ago
Traffic: 556 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