Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
edger
•
reset
9
votes
12
replies
7.7k
views
Multi factor design edgeR/Deseq2
deseq2
edgeR
rna-seq
updated 1 day ago by
Elizabeth
• 0 • written 8.8 years ago by
gthm
▴ 30
6
votes
10
replies
1.5k
views
Which input file is used for DGEList in EgdeR?
salmon
edgeR
tximport
nf-core
gene_counts
updated 23 hours ago by
i.atanasoai
• 0 • written 14 months ago by
mohammedtoufiq91
▴ 10
5
votes
6
replies
382
views
Not fully paired differential gene expression analysis
edgeR
DifferentialExpression
updated 7 days ago by
ATpoint
★ 4.0k • written 10 days ago by
nhaus
▴ 30
0
votes
6
replies
304
views
Doing comparison of RNA-seq data using EdgeR
metaMSdata
edgeR
updated 21 days ago by
Gordon Smyth
50k • written 22 days ago by
Faisal
• 0
3
votes
5
replies
327
views
Differing results from plotMDS and PCAtools
edgeR
PCAtools
updated 20 days ago by
Gordon Smyth
50k • written 22 days ago by
Fabian
• 0
0
votes
5
replies
1.8k
views
EdgeR: paired samples together with independant samples
RNASeq
edgeR
RNASeq
edgeR
updated 18 days ago by
Gordon Smyth
50k • written 11.5 years ago by
Maria Keays
▴ 30
0
votes
4
replies
195
views
FilterByExpr low counts with small sample size
edgeR
2 days ago • updated 19 hours ago
Jonathan
▴ 10
0
votes
4
replies
387
views
Adjust RNA-seq counts (more than one batch variable) for plotting differentially expressed genes
ComBat
sva
edgeR
18 days ago • updated 17 days ago
Lucy
▴ 60
1
vote
3
replies
310
views
Why is my gene not significantly differentially expressed?
limmaGUI
edgeR
limma
updated 5 days ago by
Gordon Smyth
50k • written 10 days ago by
Simran
• 0
5
votes
3
replies
669
views
What benchmark should I use for setting the EdgeR filterByExpr min.count parameter?
edgeR
DifferentialExpression
updated 23 days ago by
Gordon Smyth
50k • written 4 weeks ago by
Jack S.
▴ 50
3
votes
3
replies
265
views
permutation test in edgeR
rna-seq
edgeR
updated 5 days ago by
Gordon Smyth
50k • written 12 days ago by
Netanel
• 0
0
votes
3
replies
80
views
Finding DEGs by using edgeR
subsettingdata
edgeR
designmatrix
updated 1 day ago by
Gordon Smyth
50k • written 1 day ago by
prity6459
• 0
1
vote
3
replies
222
views
Lib sizes in the DGE object are different from original lib sizes
edgeR
DifferentialExpression
updated 14 days ago by
James W. MacDonald
65k • written 14 days ago by
Shaimaa Gamal
• 0
0
votes
2
replies
141
views
edgeR analysis: glm functions and offset matrix
tximport
edgeR
Normalization
17 days ago • updated 16 days ago
Marianna
▴ 20
0
votes
2
replies
59
views
How to make DGEList and design matrix by edgeR package
DGEList
edgeR
1 day ago
prity6459
• 0
0
votes
2
replies
1.1k
views
library size and fold changes
edgeR
edgeR
updated 21 days ago by
Gordon Smyth
50k • written 12.4 years ago by
Bogdan
▴ 670
0
votes
1
reply
207
views
Using splicing junction counts with edgeR/limma-voom
splicing
limma
edgeR
updated 29 days ago by
Gordon Smyth
50k • written 29 days ago by
scoops_streams_06
• 0
0
votes
1
reply
69
views
Log-cpm values from limma
limma
edgeR
RNASeq
updated 1 day ago by
Gordon Smyth
50k • written 2 days ago by
Shaimaa Gamal
• 0
18 results • Page
1 of 1
Recent ...
Replies
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
by
Robert Castelo
★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq
by
lonn
• 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph
by
deeenes
▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches
by
Gordon Smyth
50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param
by
russ.bainer
▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
Awards
• All
Scholar
to
Robert Castelo
★ 3.2k
Popular Question
to
James W. MacDonald
65k
Popular Question
to
shepherl
3.8k
Popular Question
to
BioinfGuru
▴ 30
Popular Question
to
Gordon Smyth
50k
Locations
• All
Ghana,
9 minutes ago
Ireland,
28 minutes ago
France,
29 minutes ago
WEHI, Melbourne, Australia,
1 hour ago
Ireland,
1 hour ago
Traffic: 444 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