Showing : SC3 • reset
0
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3
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3.5k
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Installing SC3: gfortran error on Mac M1
SC3
4.0 years ago krp • 0
1
vote
4
replies
2.2k
views
number of cell clusters in scRNA-seq
scran scater sc3
updated 6.2 years ago by ★ 29k • written 6.2 years ago by ▴ 670
0
votes
7
replies
3.0k
views
differential expression between clusters (in distinct "treatments") in scRNAseq
scater limma scde scran sc3
6.2 years ago Bogdan ▴ 670
4
votes
5
replies
2.5k
views
Using SC3 with batch corrected MNN values
SC3 Scater Scran scRNA-Seq Batch Correction
updated 6.4 years ago by ▴ 150 • written 6.4 years ago by ▴ 60
0
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2
replies
1.3k
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error running sc3_plot_de_genes in SC3 R package
SC3
updated 6.6 years ago by ▴ 150 • written 6.6 years ago by • 0
0
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1
reply
1.7k
views
SC3 how to customize plots ?
SC3 plot consensus marker heatmap
updated 6.7 years ago by ▴ 150 • written 6.8 years ago by • 0
0
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2
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1.2k
views
Failure to cluster SC3
SC3
updated 6.9 years ago by ▴ 150 • written 7.0 years ago by • 0
1
vote
1
reply
1.8k
views
A question about log_transformed
SC3
updated 7.2 years ago by 68k • written 7.2 years ago by • 0
0
votes
2
replies
1.3k
views
How can I show certain gene's expression in clusters by sc3
sc3
updated 7.3 years ago by ▴ 150 • written 7.3 years ago by • 0
1
vote
1
reply
1.2k
views
Is there a way to pull out the stability index matrix from the SC3 object?
sc3
updated 7.6 years ago by ▴ 150 • written 7.6 years ago by ▴ 10
0
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1
reply
1.6k
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SC3 Package: marker genes and normal genes obtained from featureData
SC3
updated 7.7 years ago by ▴ 150 • written 7.7 years ago by • 0
1
vote
1
reply
2.0k
views
Batch effect removal before SC3?
SC3 batch effect removebatcheffect
updated 7.8 years ago by ▴ 150 • written 7.8 years ago by ▴ 10
1
vote
8
replies
3.1k
views
SC3_estimate_k formatting error?
sc3 scater
updated 7.8 years ago by ▴ 150 • written 7.8 years ago by ▴ 10
5
votes
2
replies
7.5k
views
Raw count data for SC3 and SingleCellExperiment set problem
singlecellexperiment sc3 scater
updated 7.8 years ago by ▴ 150 • written 7.8 years ago by ▴ 10
4
votes
5
replies
2.5k
views
SC3 gene clusters
SC3 single cell single-cell Tutorial
updated 7.9 years ago by 25k • written 7.9 years ago by ▴ 20
1
vote
1
reply
1.8k
views
Does SC3 correct counts for gene length?
sc3 scater single-cell rna-seq biclustering
updated 8.0 years ago by ▴ 150 • written 8.1 years ago by ▴ 20
0
votes
1
reply
4.0k
views
Import .mtx file in R
sc3
updated 8.3 years ago by ▴ 150 • written 8.3 years ago by • 0
4
votes
2
replies
1.8k
views
sc3_plot_expression, colour labels
sc3 single-cell
updated 8.3 years ago by ▴ 150 • written 8.3 years ago by ▴ 20
3
votes
3
replies
1.8k
views
Sharing SC3_interactive results
SC3 single-cell shiny
updated 8.3 years ago by ▴ 150 • written 8.3 years ago by ▴ 20
4
votes
3
replies
2.3k
views
using SC3 and scater for bulk-RNAseq
sc3 scater scRNAseq
updated 8.5 years ago by ▴ 150 • written 8.5 years ago by ★ 1.5k
2
votes
5
replies
2.4k
views
sc3_prepare function error
sc3 scater single-cell single cell
updated 8.6 years ago by ▴ 150 • written 8.6 years ago by ★ 1.5k
3
votes
2
replies
1.7k
views
SC3 tutorial error
SC3
updated 8.8 years ago by ▴ 150 • written 8.8 years ago by ▴ 30
3
votes
1
reply
1.7k
views
SC3 with latent variable corrected counts
SC3 single cell
updated 8.9 years ago by ▴ 150 • written 8.9 years ago by ▴ 10
23 results • Page 1 of 1
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Comment: Heatmap of the Count Matrix by ArnulfoByrd • 0
Perhaps PCA loadings offer a more comprehensive perspective. Now, thinking back, I recall struggling with a similar data reduction dilemma …
Answer: readBam vs read_bam_insert_metrics by James W. MacDonald 68k
Depends on what you mean by input. If you mean to ask if you use `readBam` to generate something to use as an argument to `read_bam_insert_…
Answer: How to construct a BSgenome object from a custom genome assembly using BSgenomeF by James W. MacDonald 68k
There is an example in the help page for `forgeBSgenomePkgFromTwobitFile`. Have you tried emulating that?
Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by Gordon Smyth 53k
What you describe sounds a good approach to me. I would also use sample weights (`sample.weights=TRUE` when running `voomLmFit`) and robust…
Comment: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg? by Michael Love 43k
I moved your post from an "answer" to a "comment". I don't know about `offst()` function, what is the scale or direction, or whether you a…
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Answer: Limpa Pipeline Order
A: How barcode-plot enrichment is calculated?
A: How barcode-plot enrichment is calculated?
Answer: ROAST compare results with complex design
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
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