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SC3
•
reset
0
votes
3
replies
2.6k
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 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
Bogdan
▴ 670
0
votes
7
replies
2.1k
views
differential expression between clusters (in distinct "treatments") in scRNAseq
scater
limma
scde
scran
sc3
4.8 years ago
Bogdan
▴ 670
4
votes
5
replies
1.7k
views
Using SC3 with batch corrected MNN values
SC3
Scater
Scran
scRNA-Seq
Batch Correction
updated 5.0 years ago by
Vladimir Kiselev
▴ 150 • written 5.0 years ago by
hamza_karakurt
▴ 50
0
votes
2
replies
942
views
error running sc3_plot_de_genes in SC3 R package
SC3
updated 5.2 years ago by
Vladimir Kiselev
▴ 150 • written 5.2 years ago by
weiqiao1029
• 0
0
votes
1
reply
1.3k
views
SC3 how to customize plots ?
SC3
plot
consensus
marker
heatmap
updated 5.3 years ago by
Vladimir Kiselev
▴ 150 • written 5.4 years ago by
shaktirielland
• 0
0
votes
2
replies
918
views
Failure to cluster SC3
SC3
updated 5.5 years ago by
Vladimir Kiselev
▴ 150 • written 5.6 years ago by
jhopkins
• 0
1
vote
1
reply
1.2k
views
A question about log_transformed
SC3
updated 5.8 years ago by
James W. MacDonald
65k • written 5.8 years ago by
liushang
• 0
0
votes
2
replies
892
views
How can I show certain gene's expression in clusters by sc3
sc3
updated 5.9 years ago by
Vladimir Kiselev
▴ 150 • written 5.9 years ago by
qq1493438060
• 0
1
vote
1
reply
877
views
Is there a way to pull out the stability index matrix from the SC3 object?
sc3
updated 6.2 years ago by
Vladimir Kiselev
▴ 150 • written 6.2 years ago by
yingzi.zhang
▴ 10
0
votes
1
reply
1.2k
views
SC3 Package: marker genes and normal genes obtained from featureData
SC3
updated 6.3 years ago by
Vladimir Kiselev
▴ 150 • written 6.3 years ago by
angela.ubn
• 0
1
vote
1
reply
1.5k
views
Batch effect removal before SC3?
SC3
batch effect
removebatcheffect
updated 6.4 years ago by
Vladimir Kiselev
▴ 150 • written 6.4 years ago by
muad.abdelhay
▴ 10
1
vote
8
replies
2.3k
views
SC3_estimate_k formatting error?
sc3
scater
updated 6.4 years ago by
Vladimir Kiselev
▴ 150 • written 6.4 years ago by
alexandriapinto1
▴ 10
5
votes
2
replies
5.8k
views
Raw count data for SC3 and SingleCellExperiment set problem
singlecellexperiment
sc3
scater
updated 6.4 years ago by
Vladimir Kiselev
▴ 150 • written 6.4 years ago by
chengyuzou
▴ 10
4
votes
5
replies
1.8k
views
SC3 gene clusters
SC3
single cell
single-cell
Tutorial
updated 6.5 years ago by
Martin Morgan
25k • written 6.5 years ago by
ahmed.elewa
▴ 20
1
vote
1
reply
1.5k
views
Does SC3 correct counts for gene length?
sc3
scater
single-cell
rna-seq
biclustering
updated 6.6 years ago by
Vladimir Kiselev
▴ 150 • written 6.7 years ago by
rmf
▴ 20
0
votes
1
reply
3.4k
views
Import .mtx file in R
sc3
updated 6.8 years ago by
Vladimir Kiselev
▴ 150 • written 6.9 years ago by
suman70532
• 0
4
votes
2
replies
1.4k
views
sc3_plot_expression, colour labels
sc3
single-cell
updated 6.9 years ago by
Vladimir Kiselev
▴ 150 • written 6.9 years ago by
cfustero
▴ 20
3
votes
3
replies
1.3k
views
Sharing SC3_interactive results
SC3
single-cell
shiny
updated 6.9 years ago by
Vladimir Kiselev
▴ 150 • written 6.9 years ago by
cfustero
▴ 20
4
votes
3
replies
1.8k
views
using SC3 and scater for bulk-RNAseq
sc3
scater
scRNAseq
updated 7.1 years ago by
Vladimir Kiselev
▴ 150 • written 7.1 years ago by
Assa Yeroslaviz
★ 1.5k
2
votes
5
replies
1.9k
views
sc3_prepare function error
sc3
scater
single-cell
single cell
updated 7.2 years ago by
Vladimir Kiselev
▴ 150 • written 7.2 years ago by
Assa Yeroslaviz
★ 1.5k
3
votes
2
replies
1.3k
views
SC3 tutorial error
SC3
updated 7.4 years ago by
Vladimir Kiselev
▴ 150 • written 7.4 years ago by
Jenn
▴ 30
3
votes
1
reply
1.3k
views
SC3 with latent variable corrected counts
SC3
single cell
updated 7.5 years ago by
Vladimir Kiselev
▴ 150 • written 7.5 years ago by
Mark
▴ 10
23 results • Page
1 of 1
Recent ...
Replies
Comment: DESeq filtering specific to contrasts
by
Carlin95
• 0
Fair enough, I guess it depends on the comparison being made, right? If one was interested in a feature comparing Timepoint A vs B, then it…
Comment: DESeq2 setting significant p-value
by
Dev
• 0
Sir but when I put in the expression data via the csv file, it was showing the gene names then but now when i set it in the form factor it …
Answer: OrgDb for maize
by
James W. MacDonald
65k
``` > library(AnnotationHub) > hub <- AnnotationHub() |===========================| 100% snapshotDate(): 2023-10-23 > query(hu…
Comment: Which input file is used for DGEList in EgdeR?
by
i.atanasoai
• 0
Understood, Thank you very much for the reply, very kind.
Comment: Which input file is used for DGEList in EgdeR?
by
Michael Love
41k
"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…
Votes
Install/Switch between multiple versions of R, Rstudio, and Bioconductor
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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