Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
1
vote
0
replies
1.6k
views
Comment: Comment: Preprocessing Issue
4.8 years ago Jeff Leek ▴ 650
0
votes
0
replies
3.8k
views
Comment: C: Which raw files (RNAseq) to download?
8.5 years ago Jeff Leek ▴ 650
0
votes
0
replies
2.1k
views
Answer: A: P value <0.05 and Q values~ 1
8.5 years ago Jeff Leek ▴ 650
0
votes
0
replies
4.4k
views
Answer: A: SVA behaving weirdly, system is computationally singular , problem with method
8.5 years ago Jeff Leek ▴ 650
1
vote
0
replies
2.5k
views
Comment: C: Using SVA with RRBS data
8.7 years ago Jeff Leek ▴ 650
0
votes
1
reply
2.5k
views
Answer: A: Using SVA with RRBS data
8.7 years ago Jeff Leek ▴ 650
0
votes
1
reply
3.3k
views
Answer: A: Handling both technical and biological replicates in Ballgown
8.7 years ago Jeff Leek ▴ 650
0
votes
1
reply
2.3k
views
Comment: C: Results with very few genes with qval <0.05
8.7 years ago Jeff Leek ▴ 650
0
votes
1
reply
1.7k
views
Answer: A: IRanges error loading rsem data into ballgown
8.8 years ago Jeff Leek ▴ 650
0
votes
1
reply
4.6k
views
Answer: A: The common error with ballgown has not been solved!
8.8 years ago Jeff Leek ▴ 650
0
votes
1
reply
1.4k
views
Answer: A: Surrogate variables affecting just one sample?
8.9 years ago Jeff Leek ▴ 650
0
votes
1
reply
1.4k
views
Answer: A: Surrogate variables affecting just one sample?
8.9 years ago Jeff Leek ▴ 650
0
votes
2
replies
3.1k
views
Comment: C: limma + voom + sva + complex RNA-seq design?
8.9 years ago Jeff Leek ▴ 650
0
votes
1
reply
2.5k
views
Answer: A: Error in ball gown command
8.9 years ago Jeff Leek ▴ 650
1
vote
1
reply
1.6k
views
Answer: A: sva :: sva can variable of interest be a matrix itself?
9.0 years ago Jeff Leek ▴ 650
0
votes
0
replies
3.7k
views
Comment: C: SVA and proportion of variance explained
9.1 years ago Jeff Leek ▴ 650
0
votes
1
reply
3.7k
views
Comment: C: SVA and proportion of variance explained
9.1 years ago Jeff Leek ▴ 650
3
votes
1
reply
3.7k
views
Answer: A: SVA and proportion of variance explained
9.1 years ago Jeff Leek ▴ 650
0
votes
0
replies
2.2k
views
Comment: C: I'm worried that I can't use "ballgown" well
9.1 years ago Jeff Leek ▴ 650
2
votes
0
replies
4.6k
views
Answer: A: about SVA: matrix of corrected expression values
9.1 years ago Jeff Leek ▴ 650
3
votes
1
reply
6.6k
views
Answer: A: svaseq: how many and which surrogate variables to pick
9.2 years ago Jeff Leek ▴ 650
1
vote
0
replies
2.1k
views
Answer: A: Inspection of batch effect correction success with ComBat in R, regarding a merg
9.2 years ago Jeff Leek ▴ 650
0
votes
1
reply
1.8k
views
Answer: A: Batch effect problem using SVA showing problems
9.3 years ago Jeff Leek ▴ 650
2
votes
1
reply
7.2k
views
Answer: A: SVA: Error in svd((dats - rowMeans(dats))) : a dimension is zero
9.3 years ago Jeff Leek ▴ 650
2
votes
1
reply
1.3k
views
Answer: A: Ballgown Custom Model Question
9.3 years ago Jeff Leek ▴ 650
0
votes
0
replies
3.1k
views
Comment: C: can we use sva function to estimate artifacts for rna seq data?
9.3 years ago Jeff Leek ▴ 650
0
votes
1
reply
3.1k
views
Answer: A: can we use sva function to estimate artifacts for rna seq data?
9.3 years ago Jeff Leek ▴ 650
0
votes
1
reply
2.4k
views
Comment: C: Ballgown from StringTie results transcripts which are not expressed in both cond
9.3 years ago Jeff Leek ▴ 650
0
votes
1
reply
2.4k
views
Answer: A: Ballgown from StringTie results transcripts which are not expressed in both cond
9.3 years ago Jeff Leek ▴ 650
1
vote
1
reply
1.8k
views
Answer: A: Polyester and mutations
9.3 years ago Jeff Leek ▴ 650
0
votes
0
replies
924
views
Answer: A: question for SVA package
9.5 years ago Jeff Leek ▴ 650
1
vote
0
replies
2.4k
views
Answer: A: Null model in SVA for patient paired test comparing tumor vs normal
9.5 years ago Jeff Leek ▴ 650
1
vote
2
replies
7.5k
views
Comment: C: sva + egdeR - differential expression analysis - RNA-seq data
9.9 years ago Jeff Leek ▴ 650
2
votes
0
replies
7.5k
views
Answer: A: sva + egdeR - differential expression analysis - RNA-seq data
9.9 years ago Jeff Leek ▴ 650
3
votes
1
reply
7.5k
views
Answer: A: sva + egdeR - differential expression analysis - RNA-seq data
9.9 years ago Jeff Leek ▴ 650
0
votes
0
replies
2.1k
views
Answer: A: RMA and ComBat for 2 batches with samples in common
9.9 years ago Jeff Leek ▴ 650
0
votes
0
replies
6.0k
views
Answer: A: Running Combat in SVA with NA values in matrix
9.9 years ago Jeff Leek ▴ 650
1
vote
0
replies
6.0k
views
Answer: A: Running Combat in SVA with NA values in matrix
9.9 years ago Jeff Leek ▴ 650
0
votes
0
replies
2.1k
views
Answer: A: SomaticSignatures: negative entries after ComBat adjustment
10.0 years ago Jeff Leek ▴ 650
3
votes
0
replies
2.4k
views
Answer: A: Quantile normalization + sva for microarray experiment
10.0 years ago Jeff Leek ▴ 650
2
votes
0
replies
12k
views
Answer: A: Estimating and removing batch effects from rna-seq dataset
10.1 years ago Jeff Leek ▴ 650
1
vote
0
replies
3.0k
views
Answer: A: sva and svaseq for unsupervised analysis of expression data
10.2 years ago Jeff Leek ▴ 650
0
votes
2
replies
1.9k
views
Answer: A: Reproducibility of results with ComBat
10.2 years ago Jeff Leek ▴ 650
0
votes
0
replies
3.5k
views
Answer: A: Use surrogate variables on DESeq2
10.2 years ago Jeff Leek ▴ 650
1
vote
0
replies
3.5k
views
Answer: A: Problem with n.sv in sva package
10.3 years ago Jeff Leek ▴ 650
0
votes
1
reply
2.2k
views
Answer: A: SVA package for RRBS - bisulfite methylation data
10.3 years ago Jeff Leek ▴ 650
1
vote
0
replies
2.2k
views
Answer: A: SVA batch effects for different technologies
10.4 years ago Jeff Leek ▴ 650
0
votes
0
replies
3.1k
views
Answer: A: Remove batch effect - condition partially confounded by data
10.8 years ago Jeff Leek ▴ 650
0
votes
0
replies
3.1k
views
Answer: A: Remove batch effect - condition partially confounded by data
10.8 years ago Jeff Leek ▴ 650
2
votes
1
reply
5.2k
views
Answer: A: sva::ComBat without covariate of interest?
11.0 years ago Jeff Leek ▴ 650
66 results • Page 1 of 2
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