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Showing :
expression
•
reset
5
votes
8
replies
1.8k
views
Question on performing filtering by gene expression on a normalized matrix in limma?
expression
R
filtering
limma
18 months ago • updated 16 months ago
mohammedtoufiq91
▴ 10
0
votes
0
replies
421
views
Argument is of length zero in variancePartition/Dream
expression
variancePartition
edgeR
19 months ago
Jonathan
• 0
0
votes
1
reply
1.1k
views
Re-normalize microarray dataset in R
microarray
quantile
expression
R
Normalization
updated 2.7 years ago by
Konstantinos Yeles
▴ 80 • written 2.7 years ago by
mohammedtoufiq91
▴ 10
1
vote
1
reply
1.0k
views
Table expression data from GEO file
GEO
expression
GEOquery
updated 3.9 years ago by
Robert Castelo
★ 3.1k • written 3.9 years ago by
lsbew
• 0
1
vote
9
replies
1.8k
views
Difference between gene-level test and transcript-level test with RATs (Relative Abundance of Transcrits)
RATs
RNA-Seq
Isoforms
DTU
expression
updated 4.7 years ago by
fruce_ki
▴ 20 • written 4.7 years ago by
UserAnonyme
• 0
1
vote
2
replies
665
views
Two factors design with DESEq2
deseq2
genes
expression
updated 5.0 years ago by
Michael Love
41k • written 5.0 years ago by
UserAnonyme
• 0
7
votes
3
replies
3.1k
views
Log2(RPKM) counts in Bioconductor
rpkm
scater
calcaverage
R
expression
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
kushshah
▴ 10
0
votes
6
replies
1.3k
views
variancePartition - testing for individuals
variance
formula
expression
updated 5.2 years ago by
mikhael.manurung
▴ 270 • written 5.2 years ago by
rina
▴ 30
0
votes
0
replies
1.6k
views
Job:
Research Associate, Cambridge, UK - Oesophageal Cancer ICGC project
job
sequencing
methylation
expression
Job
9.1 years ago
Andy Lynch
▴ 120
6
votes
5
replies
1.8k
views
Limma ebayes returns a list with Affy pd.hugene.2.0.st arrays
ebayes
expression
affymetrix
pd.hugene.2.0.st
limma
updated 9.2 years ago by
Gordon Smyth
50k • written 9.2 years ago by
Paulo Nuin
▴ 200
10 results • Page
1 of 1
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Replies
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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50k
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