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0
votes
1
answer
110
views
1
answer
Scater package PlotExpression
scater written 6 weeks ago by mayank.geit89 • 0
0
votes
1
answer
53
views
1
answer
RNAseq scater error in plotQC()
scater scrnaseq plotqc written 8 weeks ago by Vladimir Krasikov • 90 • updated 8 weeks ago by Aaron Lun • 21k
3
votes
1
answer
270
views
1
answer
rowSums() rowMeans() don't work on sparse matrix "dgCMatrix"
scran single-cell scater written 4 months ago by MengChun Tseng • 10 • updated 12 weeks ago by Martin Morgan ♦♦ 22k
0
votes
1
answer
102
views
1
answer
Converting scater-normalized UMI data to Monocle CellDataSet
monocle scran scater umi written 5 months ago by supremerulersuraj • 0 • updated 5 months ago by Aaron Lun • 21k
5
votes
1
answer
114
views
1
answer
Accessing normalized counts
scater splatter singlecellexperiment written 5 months ago by luke.zappia • 30
0
votes
2
answers
816
views
2
answers
Change point size and remove outline in scater's plotPCA
rnaseq single-cell scater written 16 months ago by CodeAway • 20 • updated 5 months ago by angela.ubn • 0
1
vote
1
answer
147
views
1
answer
Inserting "Biotype" into scater SCE objects
R scater sce biotype written 6 months ago by thebadpenny • 0 • updated 6 months ago by Aaron Lun • 21k
4
votes
3
answers
362
views
3
answers
Warning: negative size factors
scran scater singlecellexperiment size factor negative written 6 months ago by Marina V.V. • 0 • updated 6 months ago by Aaron Lun • 21k
1
vote
1
answer
260
views
1
answer
SingleCellExperiment object cannot be used by Scater package?
scater simplesinglecell singlecellexperiment written 7 months ago by Xingyu • 0 • updated 7 months ago by Aaron Lun • 21k
0
votes
1
answer
164
views
1
answer
calculateQCmetrics doesn't accept `numeric` `feature_controls` in scater 1.6.2
scater written 8 months ago by Andrew_McDavid • 150 • updated 8 months ago by Aaron Lun • 21k
0
votes
2
answers
447
views
2
answers
error when installing beachmat
scater beachmat written 9 months ago by j.xu3 • 0 • updated 8 months ago by galib36 • 10
1
vote
1
answer
284
views
1
answer
scater/scran with TPMs from Salmon - counts?
salmon scran scater written 8 months ago by nk • 0 • updated 8 months ago by Aaron Lun • 21k
0
votes
0
answers
179
views
0
answers
scater automatically limit gene list size?
scater written 8 months ago by tsofoon • 0
0
votes
1
answer
305
views
1
answer
Scater read10xResults produces a SingleCellExperiment object that contains dots and no longer works with rowSums
scater written 9 months ago by star0044 • 0 • updated 9 months ago by Aaron Lun • 21k
1
vote
2
answers
381
views
2
answers
SC3_estimate_k formatting error?
scater sc3 written 10 months ago by alexandriapinto1 • 10 • updated 9 months ago by Vladimir Kiselev • 130
5
votes
2
answers
713
views
2
answers
Raw count data for SC3 and SingleCellExperiment set problem
scater sc3 singlecellexperiment written 10 months ago by chengyuzou • 10 • updated 10 months ago by Vladimir Kiselev • 130
0
votes
1
answer
300
views
1
answer
Error scatter when creating SingleCellExperiment
scater written 11 months ago by ines.desantiago • 0 • updated 11 months ago by Aaron Lun • 21k
3
votes
1
answer
468
views
1
answer
is SCEset fully abandoned in scran?
normalization scran scater splatter written 11 months ago by wt215 • 0 • updated 11 months ago by davis • 90
0
votes
2
answers
668
views
2
answers
problems when working with SingleCellExperiment object in scater
scater singlecellexperiment written 11 months ago by chriad • 10 • updated 11 months ago by davis • 90
3
votes
1
answer
445
views
1
answer
Error when merging SCESet objects
single-cell scater written 12 months ago by NathL • 0 • updated 12 months ago by Aaron Lun • 21k
1
vote
1
answer
554
views
1
answer
Does SC3 correct counts for gene length?
rna-seq single-cell scater sc3 biclustering written 13 months ago by rmf • 0 • updated 12 months ago by Vladimir Kiselev • 130
1
vote
1
answer
712
views
1
answer
Scater normalizeExprs() batch effect
batch effect scater written 13 months ago by Jenn • 20 • updated 13 months ago by Aaron Lun • 21k
3
votes
2
answers
3.6k
views
2
answers
BiocParallel/scater warning after move to R 3.4.0
biocparallel scater written 17 months ago by nhejazi • 0 • updated 15 months ago by andrew.blake • 30
3
votes
1
answer
645
views
1
answer
Sparse matrices in Bioconductor objects for single-cell analyses
workflows scater simplesinglecell written 15 months ago by sandmann.t • 40 • updated 15 months ago by Aaron Lun • 21k
0
votes
2
answers
577
views
2
answers
How does newSCESet calculate expression matrix
scater written 16 months ago by siajunren • 0 • updated 16 months ago by davis • 90
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