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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
2.2k
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
1.7k
views
Using SC3 with batch corrected MNN values
SC3
Scater
Scran
scRNA-Seq
Batch Correction
updated 5.1 years ago by
Vladimir Kiselev
▴ 150 • written 5.1 years ago by
hamza_karakurt
▴ 50
0
votes
2
replies
952
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 5.4 years ago by
Vladimir Kiselev
▴ 150 • written 5.4 years ago by
shaktirielland
• 0
0
votes
2
replies
927
views
Failure to cluster SC3
SC3
updated 5.6 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
901
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
883
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 6.4 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 6.5 years ago by
alexandriapinto1
▴ 10
5
votes
2
replies
5.9k
views
Raw count data for SC3 and SingleCellExperiment set problem
singlecellexperiment
sc3
scater
updated 6.5 years ago by
Vladimir Kiselev
▴ 150 • written 6.5 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 6.7 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 6.9 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 7.0 years ago by
Vladimir Kiselev
▴ 150 • written 7.0 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 7.5 years ago by
Vladimir Kiselev
▴ 150 • written 7.5 years ago by
Jenn
▴ 30
3
votes
1
reply
1.4k
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
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Comment: Why p value inconsistent when using different number of pathway score?
by
Chris
• 0
Hi Robert, if two conditions don't have hundreds of differential express genes ( in some conditions such as peripheral blood Alzheimer vs n…
Answer: Dominance Index for Shotgun Metagenomics Data
by
Leo Lahti
▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
pl23
• 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions
by
Michael Love
41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
by
ussarizona
▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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