Showing : Matrix • reset
10
votes
7
replies
2.4k
views
SummarizedExperiment object from GEOquery obtained GSE
geoquery summarizedexperiment GEO matrix
updated 6.3 years ago by 21k • written 6.3 years ago by ▴ 60
4
votes
8
replies
1.3k
views
problem in designing matrix and batch effect
edger rna-seq matrix
updated 4.3 years ago by 65k • written 4.3 years ago by • 0
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 ▴ 260 • written 4.6 years ago by ▴ 10
3
votes
2
replies
1.9k
views
DEXSeq throws a warning - rank-deficient matrix
dexseq fit matrix warning
updated 2.4 years ago by • 0 • written 7.2 years ago by ★ 1.5k
3
votes
8
replies
2.5k
views
S4Vectors masks/breaks regular Matrix functions
S4Vectors Matrix
7.2 years ago peter.kharchenko ▴ 30
3
votes
1
reply
2.0k
views
Convert Flowframe to matrix
flowcore fcs flow cytommetry matrix conversion
updated 4.9 years ago by ▴ 310 • written 4.9 years ago by • 0
3
votes
4
replies
1.3k
views
Paired analysis (tumor vs normal) at three different conditions with EdgeR
edger design matrix de
updated 5.1 years ago by ★ 28k • written 5.1 years ago by ▴ 10
3
votes
2
replies
785
views
Scoring a seq based on a matrix
matrix
updated 5.9 years ago by 25k • written 5.9 years ago by • 0
3
votes
7
replies
1.4k
views
small dimensions in the matrix of counts from smallRNA using DESEq2
matrix DESeq2 SmallRNA dimensions small
2.6 years ago andreia ▴ 10
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 50k • written 2.9 years ago by • 0
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 ▴ 30 • written 4.7 years ago by ▴ 10
2
votes
3
replies
1.4k
views
Filtering counts in SummarizedExperiment
diffbind matrix summarizedexperiment rangedCounts
updated 4.5 years ago by ★ 5.1k • written 4.5 years ago by ▴ 60
1
vote
3
replies
2.3k
views
[DiffBind] Memory issues with dba.count()
diffbind bigmemory matrix dba.count
updated 8.7 years ago by ★ 5.1k • written 8.7 years ago by ▴ 660
1
vote
7
replies
6.4k
views
scater runUMAP fails with error "function 'as_cholmod_sparse' not provided by package 'Matrix'"
runUMAP scater Matrix
updated 7 weeks ago by 16k • written 5 months ago by ▴ 10
1
vote
2
replies
939
views
want the piece of the matrix I wanted
matrix
updated 5.8 years ago by ★ 1.0k • written 5.8 years ago by ▴ 20
1
vote
2
replies
957
views
Which factors to include in design matrix and how to do it in a challenging experimental design
RNAseq Design Matrix
2.4 years ago Barista • 0
1
vote
2
replies
1.2k
views
sva :: sva can variable of interest be a matrix itself?
sva variable of ineterest matrix
updated 7.4 years ago by ▴ 650 • written 7.4 years ago by • 0
1
vote
2
replies
864
views
How to construct matrix and fit linear model for this microarray?
microarray dge matrix makecontrasts limma
updated 3.8 years ago by 50k • written 3.8 years ago by ▴ 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 41k • written 5.9 years ago by ▴ 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
0
votes
1
reply
840
views
[General] compare matrix to vector higher/lower
matrix
updated 8.6 years ago by ▴ 370 • written 8.6 years ago by • 0
0
votes
7
replies
2.2k
views
Deseq2 no package Matrix found
deseq2 bioconductor matrix
6.6 years ago victoria.carla.moris • 0
22 results • Page 1 of 1
Recent ...
Replies
Comment: minfi::read.metharray.exp by clacarion • 0
I think its work with `read.metharray.sheet` ```r > sheet <- read.metharray.sheet("/Users/clarachretienneau/Desktop/clock_epigenetic/PJ120…
Comment: minfi::read.metharray.exp by clacarion • 0
Thank you for your response Basti ! I add all the idat files in a unique folder called "idat" and add it in my path ```r > list.files("…
Answer: List of Deprecated Packages for Bioc3.19 by shepherl 3.8k
singleCellTK has been fixed and will remain in Bioconductor
Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10
Yes, I'm working only with genes from terpenoids pathway (14 genes), so I can't use enrichGO? Can you recommend a package or something like…
Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10
Your awnser at Cannabis orgDb solve my problems using enrichGO by far. I'm underdegree biotechnology student, and I learning bioinformatic…
Votes
Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: minfi::read.metharray.exp
Comment: Trying to use enrichGO
Answer: Cannabis OrgDb
DESeq2: How to find out how well the model fits the data?
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