Showing : matrix • reset
1
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7
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7.1k
views
scater runUMAP fails with error "function 'as_cholmod_sparse' not provided by package 'Matrix'"
runUMAP scater Matrix
updated 3 months ago by 16k • written 7 months ago by ▴ 10
1
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2
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1.0k
views
Which factors to include in design matrix and how to do it in a challenging experimental design
RNAseq Design Matrix
2.6 years ago Barista • 0
3
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7
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1.5k
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small dimensions in the matrix of counts from smallRNA using DESEq2
matrix DESeq2 SmallRNA dimensions small
2.8 years ago andreia ▴ 10
2
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3
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1.2k
views
Differential expression error in edgeR - maybe from design matrix?
design edgeR matrix RNA-seq MDplot
updated 3.0 years ago by 51k • written 3.1 years ago by • 0
1
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2
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926
views
How to construct matrix and fit linear model for this microarray?
microarray dge matrix makecontrasts limma
updated 3.9 years ago by 51k • written 3.9 years ago by ▴ 10
4
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8
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1.3k
views
problem in designing matrix and batch effect
edger rna-seq matrix
updated 4.4 years ago by 66k • written 4.4 years ago by • 0
2
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3
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1.5k
views
Filtering counts in SummarizedExperiment
diffbind matrix summarizedexperiment rangedCounts
updated 4.7 years ago by ★ 5.2k • written 4.7 years ago by ▴ 60
3
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7
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3.3k
views
Handle missing values in the z-score matrix while plotting heatmap in the ComplexHeatmap
matrix heatmap ComplexHeatmap missing values R
updated 4.7 years ago by ▴ 260 • written 4.7 years ago by ▴ 10
2
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4
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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 4.8 years ago by ▴ 30 • written 4.8 years ago by ▴ 10
3
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1
reply
2.1k
views
Convert Flowframe to matrix
flowcore fcs flow cytommetry matrix conversion
updated 5.0 years ago by ▴ 310 • written 5.0 years ago by • 0
3
votes
4
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1.3k
views
Paired analysis (tumor vs normal) at three different conditions with EdgeR
edger design matrix de
updated 5.3 years ago by ★ 28k • written 5.3 years ago by ▴ 10
1
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2
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975
views
want the piece of the matrix I wanted
matrix
updated 6.0 years ago by ★ 1.0k • written 6.0 years ago by ▴ 20
0
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5
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1.3k
views
DESeq2 design formula - correlation with ordered variable
DESeq2 design formula matrix
updated 6.0 years ago by 42k • written 6.0 years ago by ▴ 170
3
votes
2
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807
views
Scoring a seq based on a matrix
matrix
updated 6.1 years ago by 25k • written 6.1 years ago by • 0
10
votes
7
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2.5k
views
SummarizedExperiment object from GEOquery obtained GSE
geoquery summarizedexperiment GEO matrix
updated 6.5 years ago by 21k • written 6.5 years ago by ▴ 60
0
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7
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2.3k
views
Deseq2 no package Matrix found
deseq2 bioconductor matrix
6.7 years ago victoria.carla.moris • 0
3
votes
8
replies
2.6k
views
S4Vectors masks/breaks regular Matrix functions
S4Vectors Matrix
7.4 years ago peter.kharchenko ▴ 30
3
votes
2
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1.9k
views
DEXSeq throws a warning - rank-deficient matrix
dexseq fit matrix warning
updated 2.6 years ago by • 0 • written 7.4 years ago by ★ 1.5k
1
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2
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1.3k
views
sva :: sva can variable of interest be a matrix itself?
sva variable of ineterest matrix
updated 7.5 years ago by ▴ 650 • written 7.5 years ago by • 0
0
votes
1
reply
897
views
[General] compare matrix to vector higher/lower
matrix
updated 8.7 years ago by ▴ 370 • written 8.7 years ago by • 0
1
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3
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2.4k
views
[DiffBind] Memory issues with dba.count()
diffbind bigmemory matrix dba.count
updated 8.8 years ago by ★ 5.2k • written 8.8 years ago by ▴ 660
0
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4
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1.8k
views
reading in data and transform it to matrix format
matrix text
8.9 years ago Angel ▴ 40
22 results • Page 1 of 1
Recent ...
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Comment: gds in GEOmetadb 2023-06-26 version is empty by Frederico Moraes Ferreira ▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter by James W. MacDonald 66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Answer: In a 3 group DEG analysis with three batches, can I use 1 group in all three bat by Michael Love 42k
You can compare A and C thanks to the sharing of samples from B across 1, 2 and 3.
Comment: Most enriched pathway is not expressed when modifying universe parameter by adripel • 0
In the enrichGO results we have significant and non-significant enriched terms that are displayed. So why would an enriched term (significa…
Answer: Design formula, numeric contrast, and lfcshrink in deseq2 by Michael Love 42k
For questions about how to construct the correct contrasts correspond to particular hypotheses, I recommend consulting with a local statist…
Votes
Comment: Most enriched pathway is not expressed when modifying universe parameter
Time-course, comparison of two groups
Answer: Behaviour of featureCounts when quantifying multi-mapping reads
Answer: GESA with certain gene list returns no result with human genom, but many result
Answer: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
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Popular Question to Jonathan ▴ 10
Popular Question to Frederico Moraes Ferreira ▴ 100
Popular Question to richardallenfriedmanbrooklyn ▴ 20
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