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 :
Paired
•
reset
0
votes
0
replies
487
views
Csaw - WindowCount : Paired reads unexpectedly filtered out
windowCount
csaw
paired
17 months ago
julie.chevalier
• 0
1
vote
6
replies
1.4k
views
DESeq2 design for paired samples
DESeq2
paired
updated 3.2 years ago by
Michael Love
43k • written 3.2 years ago by
annamariabugaj
▴ 10
0
votes
1
reply
1.1k
views
Subject paired DESeq2 design
DESeq2
paired
design
updated 3.3 years ago by
Michael Love
43k • written 3.3 years ago by
dr
▴ 10
1
vote
15
replies
3.0k
views
between and within subjects design with batch correction
RNASeqData
BatchEffect
paired
DESeq2
3.6 years ago
demisa
• 0
0
votes
0
replies
671
views
PROPER for paired samples
PROPER
Paired
4.3 years ago
christoph8
• 0
2
votes
6
replies
1.6k
views
Nested design matrix in edgeR
edger
limma
paired
blocking
ruvseq
updated 4.5 years ago by
Gordon Smyth
51k • written 4.5 years ago by
ScA
• 0
1
vote
1
reply
726
views
DESeq2 paired test (for most samples)
deseq2
paired
tumor vs normal
updated 4.7 years ago by
Michael Love
43k • written 4.7 years ago by
dagsbio
• 0
1
vote
2
replies
968
views
Correct DESeq2 interaction design and results with paired and nested data
deseq2
Paired
Nested
updated 4.9 years ago by
Michael Love
43k • written 4.9 years ago by
julia.chariker
▴ 10
0
votes
1
reply
1.7k
views
DESeq2 comparison of treatment within tissue type, ignoring other tissue type
deseq2
comparison
design
paired
treatment
updated 5.0 years ago by
swbarnes2
★ 1.4k • written 5.0 years ago by
tinglec
• 0
1
vote
3
replies
1.2k
views
How can I run a paired RankProd analysis in R?
RankProd
paired
RNAseq
R
updated 5.1 years ago by
James W. MacDonald
67k • written 5.1 years ago by
joker33
• 0
1
vote
2
replies
1.9k
views
Pair-wise Limma Analysis with time series data and two levels (control and treatment)
limma
microarray
time series
DEG
paired
updated 5.2 years ago by
Gordon Smyth
51k • written 5.2 years ago by
kawess
• 0
6
votes
6
replies
1.8k
views
Limma DEG analysis experiment with partial paired design + batch effect
limma
paired
batch
updated 5.2 years ago by
Gordon Smyth
51k • written 5.2 years ago by
english.server
▴ 20
3
votes
3
replies
1000
views
Paired design in limma
limma
paired
updated 5.7 years ago by
Aaron Lun
★ 28k • written 5.7 years ago by
rasmus.agren
• 0
0
votes
1
reply
748
views
Paired samples in DESeq2
R
deseq2
Paired
Samples
updated 5.8 years ago by
Michael Love
43k • written 5.8 years ago by
m.wekking
• 0
3
votes
6
replies
3.2k
views
Limma design/contrast correct?
limma
microarray
design
paired
mixed model
updated 5.8 years ago by
Aaron Lun
★ 28k • written 5.8 years ago by
rasmus.agren
• 0
4
votes
9
replies
1.8k
views
limma paired design with continous covariate
limma
paired
covariate
updated 8.5 years ago by
Steve Lianoglou
★ 13k • written 8.5 years ago by
meeta.mistry
▴ 30
3
votes
3
replies
2.1k
views
read counts of paired end reads for DESeq2 analysis
deseq
featurecounts
paired
updated 8.6 years ago by
Steve Lianoglou
★ 13k • written 8.6 years ago by
tszn1984
• 0
1
vote
5
replies
1.9k
views
diffHic preparePairs() does not identify paired-end reads
diffHic
preparePairs
paired
BAM
updated 8.8 years ago by
Aaron Lun
★ 28k • written 8.8 years ago by
ilyco
• 0
1
vote
9
replies
3.9k
views
LIMMA for paired analysis with adjustment for confounding continuous variables
limma
gene expression
confounding
adjustment
paired
9.1 years ago
Loodramon
• 0
0
votes
2
replies
1.5k
views
Using merged alignments of PE readlists for DEXSeq
dexseq
paired
rnaseq
samtools merge
updated 9.3 years ago by
Alejandro Reyes
★ 1.9k • written 9.3 years ago by
arom2
• 0
0
votes
1
reply
1.3k
views
WGCNA package with monozygotic twin data
wgcna
Twin Analysis
within-pair analysis
paired
updated 9.5 years ago by
Peter Langfelder
★ 3.0k • written 9.5 years ago by
mahes.muniandy
• 0
4
votes
7
replies
3.5k
views
Correct implementation of multifactorial paired analysis in limma software package for DE expression
limma
microarray
multiple factor design
paired
updated 9.8 years ago by
Gordon Smyth
51k • written 9.8 years ago by
svlachavas
▴ 840
2
votes
1
reply
1.7k
views
EdgeR: Accounting for batch effects in a pairwise analysis
paired
batcheffect
updated 9.8 years ago by
Gordon Smyth
51k • written 9.8 years ago by
cinderelliedoll
• 0
4
votes
14
replies
5.9k
views
Including technical and biological replicates in Limma block analysis?
limma
microarray
block
paired
linear model
10.0 years ago
vas
▴ 40
7
votes
15
replies
16k
views
DESeq2 paired multifactor test
deseq2
paired
updated 23 months ago by
teabonng
• 0 • written 10.1 years ago by
hwillenbrock
▴ 20
1
vote
6
replies
3.7k
views
Limma: advice needed for best approach for joint paired and unpaired analyses in unbalanced intervention study
limma
paired
unpaired
duplicateCorrelation
updated 10.1 years ago by
bcbio_uk
▴ 10 • written 10.1 years ago by
Guido Hooiveld
★ 4.1k
1
vote
5
replies
2.2k
views
limma paired design matrix 3 factors
limma
paired
design and contrast matrix
10.1 years ago
wim.trypsteen
• 0
27 results • Page
1 of 1
Recent ...
Replies
Comment: Struggle with the replicates of epic array data
by
Melisa Tecik
• 0
Thanks you so much for the instructions. I also tried M values as you suggested but sadly the result was the same. Apparently, the problem …
Answer: bioconductor packages on bioconda
by
James W. MacDonald
67k
The bioconda people are responsible for bioconda, so you should ask them if/when they are going to update.
Answer: txdb.mmusculus.ucsc.mm10.knowngene issue on X chromosome
by
James W. MacDonald
67k
The default for `plotKaryotype` is to use hg19.
Comment: Is it possible to parallelise saveHDF5SummarizedExperiment
by
Stefano Mangiola
▴ 20
saveTileDBSummarizedExperiment would be awesome. I think we need performance for execution time and memory required to save.
Comment: Create Illmina bead summary data
by
Liu
• 0
Hi! Yes, thank you! I completely agree. I am just curious about how these two files are processed with AVG_Gre and detection p-value. I am …
Votes
Answer: Struggle with the replicates of epic array data
Answer: bioconductor packages on bioconda
Appropriate use of the function treat of the limma package
Comment: Is it recommended to analyze different tissues together when using edgeR
Answer: Deseq2 res Function
Awards
• All
Scholar
to
James W. MacDonald
67k
Popular Question
to
shepherl
4.1k
Popular Question
to
David R
▴ 90
Popular Question
to
Gordon Smyth
51k
Popular Question
to
sap275
▴ 10
Locations
• All
France,
just now
United States,
14 minutes ago
Seattle, WA, United States,
58 minutes ago
WEHI, Melbourne, Australia,
1 hour ago
United States,
1 hour ago
Traffic: 677 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