Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
0
votes
0
replies
4.1k
views
Answer: A: how to use Normalized gene expression data in Deseq2?
9.3 years ago Ryan C. Thompson ★ 7.9k
2
votes
0
replies
2.0k
views
Answer: A: Limma Nuisance Variable in an Interaction Model
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
2.4k
views
Comment: C: How to handle mix of samples from the same subject and from different subjects d
9.4 years ago Ryan C. Thompson ★ 7.9k
21
votes
1
reply
50k
views
Answer: A: Batch correction in DESeq2
9.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
2
replies
21k
views
Comment: C: DESeq2 for ChIP-seq differential peaks
9.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
21k
views
Comment: C: DESeq2 for ChIP-seq differential peaks
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
2.4k
views
Comment: C: How to handle mix of samples from the same subject and from different subjects d
9.4 years ago Ryan C. Thompson ★ 7.9k
2
votes
2
replies
2.4k
views
Answer: A: How to handle mix of samples from the same subject and from different subjects d
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
8.5k
views
Comment: C: edger, trended or common dispersion
9.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
3
replies
8.5k
views
Comment: C: edger, trended or common dispersion
9.4 years ago Ryan C. Thompson ★ 7.9k
3
votes
1
reply
8.5k
views
Answer: A: edger, trended or common dispersion
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
3.7k
views
Comment: C: Alpha diversity on Rlogtransformed data
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
3
replies
1.5k
views
Feature request for Rsubread::featureCounts: read length adjustment
updated 9.4 years ago by 52k • written 11.1 years ago by ★ 7.9k
0
votes
0
replies
1.0k
views
Answer: A: deseq2: nice p.value but adjusted p value is NA
9.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
0
replies
3.8k
views
Comment: C: Finding the coordinates from a BCV plot in edgeR
9.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
3.8k
views
Comment: C: Finding the coordinates from a BCV plot in edgeR
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
12k
views
Comment: C: Normalization of RNA-seq data: between samples and within samples
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
5.7k
views
Comment: C: DESEQ2 with 3 biological replicates for control and 1 biological replicate for t
9.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
2
replies
4.4k
views
Comment: C: Low-count filtering with uneven sequencing depth between samples?
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
4.4k
views
Comment: C: Low-count filtering with uneven sequencing depth between samples?
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
1.2k
views
Comment: C: Need assistance with complicated DESeq2 design
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
4.9k
views
Comment: C: DESeq2 very slow with many samples
9.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
4.4k
views
Comment: C: Low-count filtering with uneven sequencing depth between samples?
9.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
4.4k
views
Comment: C: Low-count filtering with uneven sequencing depth between samples?
9.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
3.5k
views
Comment: C: Interpretation of mroast gene set analysis in R and appropriate use of the funct
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
3.0k
views
Comment: C: Joint Preprocessing of RNA-Seq and Microarray datasets
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
2.1k
views
Comment: C: ANOVA in EdgeR
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
6.2k
views
Answer: A: using DEseq2 for miRNA differential expression
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
6.9k
views
Comment: C: Unable to use qvalue. Estimated pi0 is <=0
9.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
0
replies
6.9k
views
Comment: C: Unable to use qvalue. Estimated pi0 is <=0
9.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
1.3k
views
Modeling a combination of synchronized and unsynchronized time points?
design matrix spline ns limma
updated 9.5 years ago by ★ 28k • written 9.5 years ago by ★ 7.9k
0
votes
1
reply
5.1k
views
Answer: A: Can DESeq2 deal with zero-inflated data
9.5 years ago Ryan C. Thompson ★ 7.9k
6
votes
1
reply
37k
views
Answer: A: FDR and padj in deseq and edger
9.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
37k
views
Comment: C: FDR and padj in deseq and edger
9.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
1.0k
views
Comment: C: The distribution function for zero-altered negative binomial density produces a
9.5 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
1.0k
views
Answer: A: The distribution function for zero-altered negative binomial density produces a
9.5 years ago Ryan C. Thompson ★ 7.9k
6
votes
1
reply
11k
views
Answer: A: Correct assumptions of using limma moderated t-test
9.9 years ago • updated 9.5 years ago Ryan C. Thompson ★ 7.9k
5
votes
0
replies
2.6k
views
Answer: A: Appropriate explanation of the methodology behind arrayWeights function from lim
9.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
2.5k
views
Answer: A: unexpected voom! / limma contrast inconsistency
updated 9.5 years ago by 52k • written 11.6 years ago by ★ 7.9k
1
vote
2
replies
3.1k
views
Answer: A: normalized data by DESeq2 look suspicious
9.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
11k
views
Comment: C: Estimating and removing batch effects from rna-seq dataset
9.5 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
2.1k
views
Answer: A: Combination of duplicateCorrelation with arrayWeights to increase power for DE d
9.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
2.1k
views
Comment: C: Combination of duplicateCorrelation with arrayWeights to increase power for DE d
9.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
4.9k
views
Comment: C: EdgeR - RNA-Seq time course analysis - Testing main and interaction effects and
9.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
3.9k
views
Comment: C: Different results in edgeR using simple vs GLM
9.5 years ago Ryan C. Thompson ★ 7.9k
1
vote
0
replies
6.0k
views
Comment: C: Using edgeR or DESeq2 to analyze allele-specific expression?
9.5 years ago Ryan C. Thompson ★ 7.9k
2
votes
1
reply
12k
views
Answer: A: Normalization of RNA-seq data: between samples and within samples
9.5 years ago Ryan C. Thompson ★ 7.9k
1
vote
0
replies
12k
views
Comment: C: Normalization of RNA-seq data: between samples and within samples
9.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
2.6k
views
Comment: C: design matrix for cross-over + repeated measures in limma?
9.6 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
2.6k
views
Answer: A: design matrix for cross-over + repeated measures in limma?
9.6 years ago Ryan C. Thompson ★ 7.9k
819 results • Page 9 of 17
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