Showing : sc3 • reset
0
votes
3
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2.7k
views
Installing SC3: gfortran error on Mac M1
SC3
2.6 years ago krp • 0
1
vote
4
replies
1.5k
views
number of cell clusters in scRNA-seq
scran scater sc3
updated 4.9 years ago by ★ 28k • written 4.9 years ago by ▴ 670
0
votes
7
replies
2.2k
views
differential expression between clusters (in distinct "treatments") in scRNAseq
scater limma scde scran sc3
4.9 years ago Bogdan ▴ 670
4
votes
5
replies
1.8k
views
Using SC3 with batch corrected MNN values
SC3 Scater Scran scRNA-Seq Batch Correction
updated 5.1 years ago by ▴ 150 • written 5.1 years ago by ▴ 50
0
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2
replies
967
views
error running sc3_plot_de_genes in SC3 R package
SC3
updated 5.3 years ago by ▴ 150 • written 5.3 years ago by • 0
0
votes
1
reply
1.3k
views
SC3 how to customize plots ?
SC3 plot consensus marker heatmap
updated 5.4 years ago by ▴ 150 • written 5.5 years ago by • 0
0
votes
2
replies
936
views
Failure to cluster SC3
SC3
updated 5.6 years ago by ▴ 150 • written 5.6 years ago by • 0
1
vote
1
reply
1.2k
views
A question about log_transformed
SC3
updated 5.9 years ago by 66k • written 5.9 years ago by • 0
0
votes
2
replies
918
views
How can I show certain gene's expression in clusters by sc3
sc3
updated 6.0 years ago by ▴ 150 • written 6.0 years ago by • 0
1
vote
1
reply
893
views
Is there a way to pull out the stability index matrix from the SC3 object?
sc3
updated 6.3 years ago by ▴ 150 • written 6.3 years ago by ▴ 10
0
votes
1
reply
1.2k
views
SC3 Package: marker genes and normal genes obtained from featureData
SC3
updated 6.4 years ago by ▴ 150 • written 6.4 years ago by • 0
1
vote
1
reply
1.5k
views
Batch effect removal before SC3?
SC3 batch effect removebatcheffect
updated 6.4 years ago by ▴ 150 • written 6.5 years ago by ▴ 10
1
vote
8
replies
2.4k
views
SC3_estimate_k formatting error?
sc3 scater
updated 6.5 years ago by ▴ 150 • written 6.5 years ago by ▴ 10
5
votes
2
replies
6.0k
views
Raw count data for SC3 and SingleCellExperiment set problem
singlecellexperiment sc3 scater
updated 6.5 years ago by ▴ 150 • written 6.5 years ago by ▴ 10
4
votes
5
replies
1.9k
views
SC3 gene clusters
SC3 single cell single-cell Tutorial
updated 6.6 years ago by 25k • written 6.6 years ago by ▴ 20
1
vote
1
reply
1.5k
views
Does SC3 correct counts for gene length?
sc3 scater single-cell rna-seq biclustering
updated 6.7 years ago by ▴ 150 • written 6.8 years ago by ▴ 20
0
votes
1
reply
3.4k
views
Import .mtx file in R
sc3
updated 6.9 years ago by ▴ 150 • written 6.9 years ago by • 0
4
votes
2
replies
1.4k
views
sc3_plot_expression, colour labels
sc3 single-cell
updated 7.0 years ago by ▴ 150 • written 7.0 years ago by ▴ 20
3
votes
3
replies
1.4k
views
Sharing SC3_interactive results
SC3 single-cell shiny
updated 7.0 years ago by ▴ 150 • written 7.0 years ago by ▴ 20
4
votes
3
replies
1.9k
views
using SC3 and scater for bulk-RNAseq
sc3 scater scRNAseq
updated 7.2 years ago by ▴ 150 • written 7.2 years ago by ★ 1.5k
2
votes
5
replies
1.9k
views
sc3_prepare function error
sc3 scater single-cell single cell
updated 7.3 years ago by ▴ 150 • written 7.3 years ago by ★ 1.5k
3
votes
2
replies
1.3k
views
SC3 tutorial error
SC3
updated 7.5 years ago by ▴ 150 • written 7.5 years ago by ▴ 30
3
votes
1
reply
1.4k
views
SC3 with latent variable corrected counts
SC3 single cell
updated 7.6 years ago by ▴ 150 • written 7.6 years ago by ▴ 10
23 results • Page 1 of 1
Recent ...
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Comment: Ensembl plants at annotationHub? by Johannes Rainer ★ 2.0k
You can get the `EnsDb` EnsDb.Taestivum.v112.sqlite (for Ensembl 112/ ensemblgenomes 59) [here](https://www.dropbox.com/sh/msic0luivbldmb7/…
Comment: Errors in chromosome annotation-biomaRt by blackwidowzzz • 0
I recommend using a different dataset specific to your rat genome assembly version 8. You can search for available datasets within Ensembl …
Answer: Errors in chromosome annotation-biomaRt by James W. MacDonald 66k
If you are just using HGNC symbols for the lookup, and you are trying to get NCBI IDs, then I wouldn't use `biomaRt` because it's based on …
Comment: Help with ENmix readidat by James W. MacDonald 66k
Please don't add to posts from two years ago. Instead make a new post. Also, please read the help page for `readidat`. The only reason to …
Comment: LRT, more than two conditions and pairwise comparisons by James W. MacDonald 66k
In that case, probably easiest to subset to the groups being compared.
Votes
Answer: Error retrieving ensembl gene id using biomaRt...
Comment: LRT, more than two conditions and pairwise comparisons
Answer: Control group between 2 batches have different expression in RNAseq data
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
Comment: DESeq2- Mysterious interaction suppresses DEGs
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