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Matrix
•
reset
3
votes
8
replies
2.5k
views
S4Vectors masks/breaks regular Matrix functions
S4Vectors
Matrix
7.2 years ago
peter.kharchenko
▴ 30
4
votes
8
replies
1.3k
views
problem in designing matrix and batch effect
edger
rna-seq
matrix
updated 4.3 years ago by
James W. MacDonald
65k • written 4.3 years ago by
alihakimzadeh73
• 0
3
votes
7
replies
1.4k
views
small dimensions in the matrix of counts from smallRNA using DESEq2
matrix
DESeq2
SmallRNA
dimensions
small
2.7 years ago
andreia
▴ 10
3
votes
7
replies
3.2k
views
Handle missing values in the z-score matrix while plotting heatmap in the ComplexHeatmap
matrix
heatmap
ComplexHeatmap
missing values
R
updated 4.6 years ago by
Zuguang Gu
▴ 260 • written 4.6 years ago by
mohammedtoufiq91
▴ 10
0
votes
7
replies
2.3k
views
Deseq2 no package Matrix found
deseq2
bioconductor
matrix
6.6 years ago
victoria.carla.moris
• 0
10
votes
7
replies
2.4k
views
SummarizedExperiment object from GEOquery obtained GSE
geoquery
summarizedexperiment
GEO
matrix
updated 6.3 years ago by
Sean Davis
21k • written 6.3 years ago by
rbronste
▴ 60
1
vote
7
replies
6.6k
views
scater runUMAP fails with error "function 'as_cholmod_sparse' not provided by package 'Matrix'"
runUMAP
scater
Matrix
updated 9 weeks ago by
Hervé Pagès
16k • written 5 months ago by
inzirio
▴ 10
0
votes
5
replies
1.3k
views
DESeq2 design formula - correlation with ordered variable
DESeq2
design
formula
matrix
updated 5.9 years ago by
Michael Love
41k • written 5.9 years ago by
t.kuilman
▴ 170
0
votes
4
replies
1.7k
views
reading in data and transform it to matrix format
matrix
text
8.8 years ago
Angel
▴ 40
3
votes
4
replies
1.3k
views
Paired analysis (tumor vs normal) at three different conditions with EdgeR
edger
design
matrix
de
updated 5.2 years ago by
Aaron Lun
★ 28k • written 5.2 years ago by
takumima
▴ 10
2
votes
4
replies
1.1k
views
Are there any functions to subtract all features(rows) to a particular value(row) in the same data file?
R
python
normalization
matrix
updated 4.7 years ago by
shahryary
▴ 30 • written 4.7 years ago by
mohammedtoufiq91
▴ 10
2
votes
3
replies
1.4k
views
Filtering counts in SummarizedExperiment
diffbind
matrix
summarizedexperiment
rangedCounts
updated 4.5 years ago by
Rory Stark
★ 5.2k • written 4.6 years ago by
rbronste
▴ 60
2
votes
3
replies
1.2k
views
Differential expression error in edgeR - maybe from design matrix?
design
edgeR
matrix
RNA-seq
MDplot
updated 2.9 years ago by
Gordon Smyth
50k • written 2.9 years ago by
Alex
• 0
1
vote
3
replies
2.3k
views
[DiffBind] Memory issues with dba.count()
diffbind
bigmemory
matrix
dba.count
updated 8.7 years ago by
Rory Stark
★ 5.2k • written 8.7 years ago by
enricoferrero
▴ 660
1
vote
2
replies
876
views
How to construct matrix and fit linear model for this microarray?
microarray
dge
matrix
makecontrasts
limma
updated 3.8 years ago by
Gordon Smyth
50k • written 3.8 years ago by
June.
▴ 10
1
vote
2
replies
949
views
want the piece of the matrix I wanted
matrix
updated 5.9 years ago by
Axel Klenk
★ 1.0k • written 5.9 years ago by
yueli7
▴ 20
3
votes
2
replies
1.9k
views
DEXSeq throws a warning - rank-deficient matrix
dexseq
fit
matrix
warning
updated 2.5 years ago by
koushik
• 0 • written 7.2 years ago by
Assa Yeroslaviz
★ 1.5k
1
vote
2
replies
1.3k
views
sva :: sva can variable of interest be a matrix itself?
sva
variable of ineterest
matrix
updated 7.4 years ago by
Jeff Leek
▴ 650 • written 7.4 years ago by
reyhan.sonmez
• 0
3
votes
2
replies
791
views
Scoring a seq based on a matrix
matrix
updated 6.0 years ago by
Martin Morgan
25k • written 6.0 years ago by
ahmad.iut
• 0
1
vote
2
replies
975
views
Which factors to include in design matrix and how to do it in a challenging experimental design
RNAseq
Design
Matrix
2.5 years ago
Barista
• 0
0
votes
1
reply
852
views
[General] compare matrix to vector higher/lower
matrix
updated 8.6 years ago by
andrew.j.skelton73
▴ 370 • written 8.6 years ago by
BenAbflack
• 0
3
votes
1
reply
2.0k
views
Convert Flowframe to matrix
flowcore
fcs
flow cytommetry
matrix
conversion
updated 4.9 years ago by
Jake Wagner
▴ 310 • written 4.9 years ago by
apurva
• 0
22 results • Page
1 of 1
Recent ...
Replies
Answer: Once again a "Model matrix not full rank"
by
swbarnes2
★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2
by
Kim
• 0
Thank you Tim, this is a great help in getting me started!
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
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