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sc3
•
reset
0
votes
3
replies
1.7k
views
Installing SC3: gfortran error on Mac M1
SC3
16 months ago
krp
• 0
1
vote
4
replies
827
views
number of cell clusters in scRNA-seq
scran
scater
sc3
updated 3.6 years ago by
Aaron Lun
★ 28k • written 3.6 years ago by
Bogdan
▴ 660
0
votes
7
replies
933
views
differential expression between clusters (in distinct "treatments") in scRNAseq
scater
limma
scde
scran
sc3
3.6 years ago
Bogdan
▴ 660
4
votes
5
replies
1.1k
views
Using SC3 with batch corrected MNN values
SC3
Scater
Scran
scRNA-Seq
Batch Correction
updated 3.8 years ago by
Vladimir Kiselev
▴ 150 • written 3.8 years ago by
hamza_karakurt
▴ 50
0
votes
2
replies
625
views
error running sc3_plot_de_genes in SC3 R package
SC3
updated 3.9 years ago by
Vladimir Kiselev
▴ 150 • written 3.9 years ago by
weiqiao1029
• 0
0
votes
1
reply
821
views
SC3 how to customize plots ?
SC3
plot
consensus
marker
heatmap
updated 4.1 years ago by
Vladimir Kiselev
▴ 150 • written 4.2 years ago by
shaktirielland
• 0
0
votes
2
replies
670
views
Failure to cluster SC3
SC3
updated 4.3 years ago by
Vladimir Kiselev
▴ 150 • written 4.3 years ago by
jhopkins
• 0
1
vote
1
reply
682
views
A question about log_transformed
SC3
updated 4.6 years ago by
James W. MacDonald
62k • written 4.6 years ago by
liushang
• 0
0
votes
2
replies
584
views
How can I show certain gene's expression in clusters by sc3
sc3
updated 4.7 years ago by
Vladimir Kiselev
▴ 150 • written 4.7 years ago by
qq1493438060
• 0
1
vote
1
reply
632
views
Is there a way to pull out the stability index matrix from the SC3 object?
sc3
updated 5.0 years ago by
Vladimir Kiselev
▴ 150 • written 5.0 years ago by
yingzi.zhang
▴ 10
0
votes
1
reply
828
views
SC3 Package: marker genes and normal genes obtained from featureData
SC3
updated 5.0 years ago by
Vladimir Kiselev
▴ 150 • written 5.1 years ago by
angela.ubn
• 0
1
vote
1
reply
1.0k
views
Batch effect removal before SC3?
SC3
batch effect
removebatcheffect
updated 5.1 years ago by
Vladimir Kiselev
▴ 150 • written 5.1 years ago by
muad.abdelhay
▴ 10
1
vote
8
replies
1.6k
views
SC3_estimate_k formatting error?
sc3
scater
updated 5.1 years ago by
Vladimir Kiselev
▴ 150 • written 5.2 years ago by
alexandriapinto1
▴ 10
5
votes
2
replies
4.5k
views
Raw count data for SC3 and SingleCellExperiment set problem
singlecellexperiment
sc3
scater
updated 5.2 years ago by
Vladimir Kiselev
▴ 150 • written 5.2 years ago by
chengyuzou
▴ 10
4
votes
5
replies
1.1k
views
SC3 gene clusters
SC3
single cell
single-cell
Tutorial
updated 5.3 years ago by
Martin Morgan
25k • written 5.3 years ago by
ahmed.elewa
▴ 20
1
vote
1
reply
1.1k
views
Does SC3 correct counts for gene length?
sc3
scater
single-cell
rna-seq
biclustering
updated 5.4 years ago by
Vladimir Kiselev
▴ 150 • written 5.4 years ago by
rmf
▴ 20
0
votes
1
reply
2.8k
views
Import .mtx file in R
sc3
updated 5.6 years ago by
Vladimir Kiselev
▴ 150 • written 5.6 years ago by
suman70532
• 0
4
votes
2
replies
988
views
sc3_plot_expression, colour labels
sc3
single-cell
updated 5.6 years ago by
Vladimir Kiselev
▴ 150 • written 5.6 years ago by
cfustero
▴ 20
3
votes
3
replies
933
views
Sharing SC3_interactive results
SC3
single-cell
shiny
updated 5.7 years ago by
Vladimir Kiselev
▴ 150 • written 5.7 years ago by
cfustero
▴ 20
4
votes
3
replies
1.4k
views
using SC3 and scater for bulk-RNAseq
sc3
scater
scRNAseq
updated 5.9 years ago by
Vladimir Kiselev
▴ 150 • written 5.9 years ago by
Assa Yeroslaviz
★ 1.5k
2
votes
5
replies
1.4k
views
sc3_prepare function error
sc3
scater
single-cell
single cell
updated 5.9 years ago by
Vladimir Kiselev
▴ 150 • written 5.9 years ago by
Assa Yeroslaviz
★ 1.5k
3
votes
2
replies
1.0k
views
SC3 tutorial error
SC3
updated 6.2 years ago by
Vladimir Kiselev
▴ 150 • written 6.2 years ago by
Jenn
▴ 30
3
votes
1
reply
1.0k
views
SC3 with latent variable corrected counts
SC3
single cell
updated 6.2 years ago by
Vladimir Kiselev
▴ 150 • written 6.2 years ago by
Mark
▴ 10
23 results • Page
1 of 1
Recent ...
Replies
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
by
Bernardo
• 0
Just did that, thank you for the suggestion.
Comment: Empty ChipQC Report
by
Okan
• 0
Hi, I have the same issue. Have you found any solution or any reason why this is happening?
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
Gordon Smyth
47k
Am I understanding correctly that you have 24 RNA-seq libraries in total, 6 from the pooled samples and 18 from regular samples with biolog…
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
k.roelfs
• 0
I'm sorry, I know it is kinda confusing... We have 6 pools in total: Phenotype A: T1a, T2, T1b, T1c Phenotype B: T1, T2 Each pool consist…
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
Gordon Smyth
47k
Sorry, I don't understand your experiment. You are reading the edgeR Section on on what to do without replicates, but your experiment appe…
Votes
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
Volcano Plot in R
Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.
Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.
Answer: MA plot
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