Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
0
votes
1
reply
3.3k
views
Comment: C: Removing batch effects from microarray data based on only a subset of samples
7.2 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
3.9k
views
Answer: A: Applying SVA to RNA-Seq dataset
7.2 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
2.2k
views
Comment: C: Help running the nondetects::qpcrImpute on my data?
7.2 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
1.9k
views
Answer: A: Normalized counts after fitting linear model with batch effects - edgeR
7.2 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
1.9k
views
Comment: C: Normalized counts after fitting linear model with batch effects - edgeR
7.2 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
2.2k
views
Comment: C: Help running the nondetects::qpcrImpute on my data?
7.2 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
2.2k
views
Comment: C: Help running the nondetects::qpcrImpute on my data?
7.2 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
8.3k
views
Comment: C: Correct sequence of functions for edgeR, edgeR robust and edgeR QL.
7.3 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
1.7k
views
Comment: C: DESeq2 Different Results when using different foreach parallel backends
7.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
1.9k
views
Comment: C: glmTreat Errors for multi coefficient and analysis of deviance situations.
7.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
2
replies
1.9k
views
Comment: C: glmTreat Errors for multi coefficient and analysis of deviance situations.
7.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
1.9k
views
Answer: A: glmTreat Errors for multi coefficient and analysis of deviance situations.
7.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
2.0k
views
Comment: C: normalization of CHIP-seq samples (ChIP and INPUT)
7.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
0
replies
2.2k
views
Comment: C: Loads, really loads of DEGs after edgeR differential analysis
7.4 years ago Ryan C. Thompson ★ 7.9k
2
votes
1
reply
13k
views
Comment: C: Effect of lfcThreshold on p-value in DESeq2
7.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
2.2k
views
Answer: A: Loads, really loads of DEGs after edgeR differential analysis
7.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
0
replies
5.7k
views
Comment: C: Camera and ROAST
7.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
0
replies
1.4k
views
Answer: A: Mixed conditions: Design and contrast matrix
7.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
0
replies
5.7k
views
Comment: C: Camera and ROAST
7.4 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
926
views
Answer: A: normalization of ChIP-seq
7.4 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
9.3k
views
Comment: C: Choosing a threshold for minimum counts in RNAseq
7.4 years ago Ryan C. Thompson ★ 7.9k
2
votes
1
reply
2.2k
views
Comment: C: Is there are better way to improve the design via blocking or contrasts while us
7.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
3.7k
views
Comment: C: Comparing one condition to multiple others using DESeq2 contrasts
7.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
1.3k
views
Answer: A: Will large differences in the number of reads between samples decrease reliabili
7.5 years ago Ryan C. Thompson ★ 7.9k
2
votes
1
reply
2.2k
views
Comment: C: Is there are better way to improve the design via blocking or contrasts while us
7.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
1.3k
views
Comment: C: Non-used samples changing number of significant genes in limma
7.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
1.3k
views
Answer: A: Non-used samples changing number of significant genes in limma
7.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
2.1k
views
Comment: C: Limma: how to account for twin data (both MZ and DZ twins)?
7.5 years ago Ryan C. Thompson ★ 7.9k
9
votes
2
replies
2.1k
views
Can I meaningfully interpret a PCA or MDS plot of data with surrogate variable effects subtracted?
sva pca
updated 7.5 years ago by ▴ 120 • written 7.5 years ago by ★ 7.9k
0
votes
1
reply
13k
views
Answer: A: Why different filtering criteria using CPM to filter the RNA-seq count data in e
7.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
2.0k
views
Comment: C: When doing differential gene analysis, why measuring genes based on exons? Can w
7.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
13k
views
Comment: C: Why different filtering criteria using CPM to filter the RNA-seq count data in e
7.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
2.0k
views
Comment: C: When doing differential gene analysis, why measuring genes based on exons? Can w
7.5 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
2.0k
views
Comment: C: When doing differential gene analysis, why measuring genes based on exons? Can w
7.5 years ago Ryan C. Thompson ★ 7.9k
2
votes
1
reply
2.2k
views
Answer: A: One-condition limma test
7.5 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
2.8k
views
Answer: A: tximport recommendation for limma-trend downstream analysis?
7.6 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
5.4k
views
Comment: C: Why limma, edgeR, and DESeq did not implement fold change moderation first?
7.6 years ago Ryan C. Thompson ★ 7.9k
1
vote
0
replies
2.0k
views
Comment: C: EdgeR: Replicate samples diverge in MDS plot
7.6 years ago Ryan C. Thompson ★ 7.9k
2
votes
1
reply
2.0k
views
Answer: A: EdgeR: Replicate samples diverge in MDS plot
7.6 years ago Ryan C. Thompson ★ 7.9k
1
vote
2
replies
5.4k
views
Answer: A: Why limma, edgeR, and DESeq did not implement fold change moderation first?
7.6 years ago Ryan C. Thompson ★ 7.9k
3
votes
1
reply
2.6k
views
Answer: A: limma-trend with random effects and/or array weights
7.6 years ago Ryan C. Thompson ★ 7.9k
0
votes
0
replies
1.4k
views
Comment: C: Can rtracklayer import tab-delimited BED files with unquoted spaces in fields?
7.6 years ago Ryan C. Thompson ★ 7.9k
1
vote
2
replies
1.4k
views
Can rtracklayer import tab-delimited BED files with unquoted spaces in fields?
rtracklayer bed software error
updated 7.6 years ago by ★ 11k • written 7.6 years ago by ★ 7.9k
0
votes
0
replies
11k
views
Comment: C: removeBatchEffect options: design and covariates
updated 7.6 years ago by 52k • written 10.7 years ago by ★ 7.9k
0
votes
1
reply
11k
views
Comment: C: removeBatchEffect options: design and covariates
updated 7.6 years ago by 52k • written 10.7 years ago by ★ 7.9k
0
votes
0
replies
11k
views
Comment: C: removeBatchEffect options: design and covariates
updated 7.6 years ago by 52k • written 10.7 years ago by ★ 7.9k
7
votes
3
replies
11k
views
Answer: A: removeBatchEffect options: design and covariates
updated 7.6 years ago by 52k • written 10.7 years ago by ★ 7.9k
1
vote
0
replies
3.0k
views
Comment: C: Why Differential expression results differ with edgeR and limma ?
7.7 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
1.6k
views
Answer: A: Prefering Grouping variables or Interaction terms in Experimental Design
7.7 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
1.1k
views
Comment: C: LFDR PROPTRUENULL LIMMA
7.7 years ago Ryan C. Thompson ★ 7.9k
819 results • Page 3 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