Showing : sc3 • reset
0
votes
3
replies
3.0k
views
Installing SC3: gfortran error on Mac M1
SC3
3.2 years ago krp • 0
1
vote
4
replies
1.8k
views
number of cell clusters in scRNA-seq
scran scater sc3
updated 5.4 years ago by ★ 28k • written 5.4 years ago by ▴ 670
0
votes
7
replies
2.6k
views
differential expression between clusters (in distinct "treatments") in scRNAseq
scater limma scde scran sc3
5.4 years ago Bogdan ▴ 670
4
votes
5
replies
2.1k
views
Using SC3 with batch corrected MNN values
SC3 Scater Scran scRNA-Seq Batch Correction
updated 5.6 years ago by ▴ 150 • written 5.6 years ago by ▴ 60
0
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2
replies
1.1k
views
error running sc3_plot_de_genes in SC3 R package
SC3
updated 5.8 years ago by ▴ 150 • written 5.8 years ago by • 0
0
votes
1
reply
1.5k
views
SC3 how to customize plots ?
SC3 plot consensus marker heatmap
updated 5.9 years ago by ▴ 150 • written 6.0 years ago by • 0
0
votes
2
replies
1.1k
views
Failure to cluster SC3
SC3
updated 6.1 years ago by ▴ 150 • written 6.1 years ago by • 0
1
vote
1
reply
1.5k
views
A question about log_transformed
SC3
updated 6.4 years ago by 67k • written 6.4 years ago by • 0
0
votes
2
replies
1.1k
views
How can I show certain gene's expression in clusters by sc3
sc3
updated 6.5 years ago by ▴ 150 • written 6.5 years ago by • 0
1
vote
1
reply
1.0k
views
Is there a way to pull out the stability index matrix from the SC3 object?
sc3
updated 6.8 years ago by ▴ 150 • written 6.8 years ago by ▴ 10
0
votes
1
reply
1.4k
views
SC3 Package: marker genes and normal genes obtained from featureData
SC3
updated 6.9 years ago by ▴ 150 • written 6.9 years ago by • 0
1
vote
1
reply
1.7k
views
Batch effect removal before SC3?
SC3 batch effect removebatcheffect
updated 7.0 years ago by ▴ 150 • written 7.0 years ago by ▴ 10
1
vote
8
replies
2.7k
views
SC3_estimate_k formatting error?
sc3 scater
updated 7.0 years ago by ▴ 150 • written 7.0 years ago by ▴ 10
5
votes
2
replies
6.6k
views
Raw count data for SC3 and SingleCellExperiment set problem
singlecellexperiment sc3 scater
updated 7.0 years ago by ▴ 150 • written 7.0 years ago by ▴ 10
4
votes
5
replies
2.1k
views
SC3 gene clusters
SC3 single cell single-cell Tutorial
updated 7.1 years ago by 25k • written 7.1 years ago by ▴ 20
1
vote
1
reply
1.6k
views
Does SC3 correct counts for gene length?
sc3 scater single-cell rna-seq biclustering
updated 7.2 years ago by ▴ 150 • written 7.3 years ago by ▴ 20
0
votes
1
reply
3.6k
views
Import .mtx file in R
sc3
updated 7.4 years ago by ▴ 150 • written 7.4 years ago by • 0
4
votes
2
replies
1.6k
views
sc3_plot_expression, colour labels
sc3 single-cell
updated 7.5 years ago by ▴ 150 • written 7.5 years ago by ▴ 20
3
votes
3
replies
1.5k
views
Sharing SC3_interactive results
SC3 single-cell shiny
updated 7.5 years ago by ▴ 150 • written 7.5 years ago by ▴ 20
4
votes
3
replies
2.1k
views
using SC3 and scater for bulk-RNAseq
sc3 scater scRNAseq
updated 7.7 years ago by ▴ 150 • written 7.7 years ago by ★ 1.5k
2
votes
5
replies
2.1k
views
sc3_prepare function error
sc3 scater single-cell single cell
updated 7.8 years ago by ▴ 150 • written 7.8 years ago by ★ 1.5k
3
votes
2
replies
1.5k
views
SC3 tutorial error
SC3
updated 8.0 years ago by ▴ 150 • written 8.0 years ago by ▴ 30
3
votes
1
reply
1.5k
views
SC3 with latent variable corrected counts
SC3 single cell
updated 8.1 years ago by ▴ 150 • written 8.1 years ago by ▴ 10
23 results • Page 1 of 1
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Comment: CleanUpRNAseq with a GTF that is missing mitochondria annotation data by rcreed • 0
The updated version worked well on my data. Thank you!
Answer: DE analysis on Single cell RNA Seq time course data (using pseudotime) with 5 di by James W. MacDonald 67k
The two contrasts at the bottom are identical but for the sign of the logFC, so you should expect the same results (except for flipped sign…
Comment: Identical samples after deseq2 batch effect removal by Michael Love 42k
Oh, i didn't realize there is another method in the mix here. I would not necessarily trust this "batch correction" method, and suspect o…
Comment: Identifying potentially associated gene set to drug response using GSVA by Kent • 0
Hi @robertc thanks for the reply. I should have explained to you the context first. I am testing over a hundred drugs on patient samples (s…
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification by James W. MacDonald 67k
You can easily answer this question yourself. ``` > library(BiocPkgTools) Loading required package: htmlwidgets > depdf <- buildPkgDe…
Votes
Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data
Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data
A: TopGO: How to retrieve the gene list related to a GO ID ?
A: Error in DESeqDataSet : some values in assay are not integers
A: correcting the batch effects in Limma and SVA
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