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SC3
•
reset
0
votes
3
replies
3.6k
views
Installing SC3: gfortran error on Mac M1
SC3
4.1 years ago
krp
• 0
1
vote
4
replies
2.3k
views
number of cell clusters in scRNA-seq
scran
scater
sc3
updated 6.3 years ago by
Aaron Lun
★ 29k • written 6.3 years ago by
Bogdan
▴ 670
0
votes
7
replies
3.1k
views
differential expression between clusters (in distinct "treatments") in scRNAseq
scater
limma
scde
scran
sc3
6.4 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 6.6 years ago by
Vladimir Kiselev
▴ 150 • written 6.6 years ago by
hamza_karakurt
▴ 60
0
votes
2
replies
1.4k
views
error running sc3_plot_de_genes in SC3 R package
SC3
updated 6.7 years ago by
Vladimir Kiselev
▴ 150 • written 6.7 years ago by
weiqiao1029
• 0
0
votes
1
reply
1.7k
views
SC3 how to customize plots ?
SC3
plot
consensus
marker
heatmap
updated 6.9 years ago by
Vladimir Kiselev
▴ 150 • written 6.9 years ago by
shaktirielland
• 0
0
votes
2
replies
1.2k
views
Failure to cluster SC3
SC3
updated 7.1 years ago by
Vladimir Kiselev
▴ 150 • written 7.1 years ago by
jhopkins
• 0
1
vote
1
reply
1.9k
views
A question about log_transformed
SC3
updated 7.3 years ago by
James W. MacDonald
68k • written 7.3 years ago by
liushang
• 0
0
votes
2
replies
1.3k
views
How can I show certain gene's expression in clusters by sc3
sc3
updated 7.4 years ago by
Vladimir Kiselev
▴ 150 • written 7.4 years ago by
qq1493438060
• 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 7.7 years ago by
Vladimir Kiselev
▴ 150 • written 7.8 years ago by
yingzi.zhang
▴ 10
0
votes
1
reply
1.6k
views
SC3 Package: marker genes and normal genes obtained from featureData
SC3
updated 7.8 years ago by
Vladimir Kiselev
▴ 150 • written 7.9 years ago by
angela.ubn
• 0
1
vote
1
reply
2.0k
views
Batch effect removal before SC3?
SC3
batch effect
removebatcheffect
updated 7.9 years ago by
Vladimir Kiselev
▴ 150 • written 7.9 years ago by
muad.abdelhay
▴ 10
1
vote
8
replies
3.1k
views
SC3_estimate_k formatting error?
sc3
scater
updated 7.9 years ago by
Vladimir Kiselev
▴ 150 • written 8.0 years ago by
alexandriapinto1
▴ 10
5
votes
2
replies
7.5k
views
Raw count data for SC3 and SingleCellExperiment set problem
singlecellexperiment
sc3
scater
updated 8.0 years ago by
Vladimir Kiselev
▴ 150 • written 8.0 years ago by
chengyuzou
▴ 10
4
votes
5
replies
2.6k
views
SC3 gene clusters
SC3
single cell
single-cell
Tutorial
updated 8.0 years ago by
Martin Morgan
25k • written 8.0 years ago by
ahmed.elewa
▴ 20
1
vote
1
reply
1.9k
views
Does SC3 correct counts for gene length?
sc3
scater
single-cell
rna-seq
biclustering
updated 8.2 years ago by
Vladimir Kiselev
▴ 150 • written 8.2 years ago by
firestar
▴ 20
0
votes
1
reply
4.0k
views
Import .mtx file in R
sc3
updated 8.4 years ago by
Vladimir Kiselev
▴ 150 • written 8.4 years ago by
suman70532
• 0
4
votes
2
replies
1.9k
views
sc3_plot_expression, colour labels
sc3
single-cell
updated 8.4 years ago by
Vladimir Kiselev
▴ 150 • written 8.4 years ago by
cfustero
▴ 20
3
votes
3
replies
1.8k
views
Sharing SC3_interactive results
SC3
single-cell
shiny
updated 8.5 years ago by
Vladimir Kiselev
▴ 150 • written 8.5 years ago by
cfustero
▴ 20
4
votes
3
replies
2.4k
views
using SC3 and scater for bulk-RNAseq
sc3
scater
scRNAseq
updated 8.6 years ago by
Vladimir Kiselev
▴ 150 • written 8.6 years ago by
Assa Yeroslaviz
★ 1.5k
2
votes
5
replies
2.4k
views
sc3_prepare function error
sc3
scater
single-cell
single cell
updated 8.7 years ago by
Vladimir Kiselev
▴ 150 • written 8.7 years ago by
Assa Yeroslaviz
★ 1.5k
3
votes
2
replies
1.7k
views
SC3 tutorial error
SC3
updated 9.0 years ago by
Vladimir Kiselev
▴ 150 • written 9.0 years ago by
Jenn
▴ 30
3
votes
1
reply
1.7k
views
SC3 with latent variable corrected counts
SC3
single cell
updated 9.0 years ago by
Vladimir Kiselev
▴ 150 • written 9.0 years ago by
Mark
▴ 10
23 results • Page
1 of 1
Recent ...
Replies
Comment: deseq2 filter the low counts
by
Michael Love
43k
Have you seen this part: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#pre-filtering
Comment: deseq2 filter the low counts
by
empty_mt
• 0
Hi Michael, My matrix consists of 36 samples from 6 treatments (6 samples/ treatment), whether I adjust prefiltering parameters or not, in…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
dan.gatti
• 0
That works. I didn't realize what you said about HDF5 files. We always keep those and archive the MTX files. I'm able to read in the file…
Comment: DESeq2 interactions
by
Michael Love
43k
GPT even v4 gives pretty good answers to DESeq2 questions that are similar to those already posted on the support site. I've also noticed …
Answer: Important: Bioconductor Release 3.22 Delayed
by
shepherl
4.2k
We will continue with the release on Thursday October 30th. We have shifted one day as originally planned. Thank you
Votes
Answer: DESeq2 interactions
Answer: Important: Bioconductor Release 3.22 Delayed
A: Multi-level experiments in Limma
Answer: Should voomWithQualityWeights still be used when the sample-specific weights var
Answer: DESeq2 for candidate gene analysis
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