Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
SC3
•
reset
0
votes
3
replies
3.1k
views
Installing SC3: gfortran error on Mac M1
SC3
3.3 years ago
krp
• 0
1
vote
4
replies
1.9k
views
number of cell clusters in scRNA-seq
scran
scater
sc3
updated 5.6 years ago by
Aaron Lun
★ 28k • written 5.6 years ago by
Bogdan
▴ 670
0
votes
7
replies
2.7k
views
differential expression between clusters (in distinct "treatments") in scRNAseq
scater
limma
scde
scran
sc3
5.6 years ago
Bogdan
▴ 670
4
votes
5
replies
2.2k
views
Using SC3 with batch corrected MNN values
SC3
Scater
Scran
scRNA-Seq
Batch Correction
updated 5.8 years ago by
Vladimir Kiselev
▴ 150 • written 5.8 years ago by
hamza_karakurt
▴ 60
0
votes
2
replies
1.2k
views
error running sc3_plot_de_genes in SC3 R package
SC3
updated 5.9 years ago by
Vladimir Kiselev
▴ 150 • written 5.9 years ago by
weiqiao1029
• 0
0
votes
1
reply
1.6k
views
SC3 how to customize plots ?
SC3
plot
consensus
marker
heatmap
updated 6.1 years ago by
Vladimir Kiselev
▴ 150 • written 6.2 years ago by
shaktirielland
• 0
0
votes
2
replies
1.1k
views
Failure to cluster SC3
SC3
updated 6.3 years ago by
Vladimir Kiselev
▴ 150 • written 6.3 years ago by
jhopkins
• 0
1
vote
1
reply
1.6k
views
A question about log_transformed
SC3
updated 6.6 years ago by
James W. MacDonald
67k • written 6.6 years ago by
liushang
• 0
0
votes
2
replies
1.1k
views
How can I show certain gene's expression in clusters by sc3
sc3
updated 6.7 years ago by
Vladimir Kiselev
▴ 150 • written 6.7 years ago by
qq1493438060
• 0
1
vote
1
reply
1.1k
views
Is there a way to pull out the stability index matrix from the SC3 object?
sc3
updated 7.0 years ago by
Vladimir Kiselev
▴ 150 • written 7.0 years ago by
yingzi.zhang
▴ 10
0
votes
1
reply
1.4k
views
SC3 Package: marker genes and normal genes obtained from featureData
SC3
updated 7.1 years ago by
Vladimir Kiselev
▴ 150 • written 7.1 years ago by
angela.ubn
• 0
1
vote
1
reply
1.8k
views
Batch effect removal before SC3?
SC3
batch effect
removebatcheffect
updated 7.1 years ago by
Vladimir Kiselev
▴ 150 • written 7.1 years ago by
muad.abdelhay
▴ 10
1
vote
8
replies
2.8k
views
SC3_estimate_k formatting error?
sc3
scater
updated 7.2 years ago by
Vladimir Kiselev
▴ 150 • written 7.2 years ago by
alexandriapinto1
▴ 10
5
votes
2
replies
6.8k
views
Raw count data for SC3 and SingleCellExperiment set problem
singlecellexperiment
sc3
scater
updated 7.2 years ago by
Vladimir Kiselev
▴ 150 • written 7.2 years ago by
chengyuzou
▴ 10
4
votes
5
replies
2.2k
views
SC3 gene clusters
SC3
single cell
single-cell
Tutorial
updated 7.3 years ago by
Martin Morgan
25k • written 7.3 years ago by
ahmed.elewa
▴ 20
1
vote
1
reply
1.7k
views
Does SC3 correct counts for gene length?
sc3
scater
single-cell
rna-seq
biclustering
updated 7.4 years ago by
Vladimir Kiselev
▴ 150 • written 7.5 years ago by
firestar
▴ 20
0
votes
1
reply
3.7k
views
Import .mtx file in R
sc3
updated 7.6 years ago by
Vladimir Kiselev
▴ 150 • written 7.6 years ago by
suman70532
• 0
4
votes
2
replies
1.7k
views
sc3_plot_expression, colour labels
sc3
single-cell
updated 7.6 years ago by
Vladimir Kiselev
▴ 150 • written 7.6 years ago by
cfustero
▴ 20
3
votes
3
replies
1.6k
views
Sharing SC3_interactive results
SC3
single-cell
shiny
updated 7.7 years ago by
Vladimir Kiselev
▴ 150 • written 7.7 years ago by
cfustero
▴ 20
4
votes
3
replies
2.2k
views
using SC3 and scater for bulk-RNAseq
sc3
scater
scRNAseq
updated 7.9 years ago by
Vladimir Kiselev
▴ 150 • written 7.9 years ago by
Assa Yeroslaviz
★ 1.5k
2
votes
5
replies
2.2k
views
sc3_prepare function error
sc3
scater
single-cell
single cell
updated 8.0 years ago by
Vladimir Kiselev
▴ 150 • written 8.0 years ago by
Assa Yeroslaviz
★ 1.5k
3
votes
2
replies
1.5k
views
SC3 tutorial error
SC3
updated 8.2 years ago by
Vladimir Kiselev
▴ 150 • written 8.2 years ago by
Jenn
▴ 30
3
votes
1
reply
1.5k
views
SC3 with latent variable corrected counts
SC3
single cell
updated 8.2 years ago by
Vladimir Kiselev
▴ 150 • written 8.3 years ago by
Mark
▴ 10
23 results • Page
1 of 1
Recent ...
Replies
Comment: How to visualize these pathways using pathview
by
Guido Hooiveld
★ 4.1k
FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…
Comment: Why select top highly expressed genes based on normalized counts, but then plot
by
Quang NN
▴ 10
I see. Thank you ATpoint!
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
by
Prakash Sah
• 0
Thanks James!
Comment: Why select top highly expressed genes based on normalized counts, but then plot
by
ATpoint
★ 4.6k
I think I explained what the differences between approach 1 and 2 is in my answer. I assume that the tutorial uses vst because it is varian…
Comment: Why select top highly expressed genes based on normalized counts, but then plot
by
Quang NN
▴ 10
Thank you ATpoint for your responses. I am a bit confused because the difference between the two approaches is the selection of the genes…
Votes
Bioconductor Course, Kenya 2025: Applications Open!
Comment: can't install tscR
Answer: Csaw normalization strategies - general inquiry
A: DESeq2 interaction term
Comment: Recount3 data correspond to TCGA data
Awards
• All
Popular Question
to
Maria Doyle
▴ 100
Popular Question
to
Robert Ivanek
▴ 750
Popular Question
to
shepherl
4.1k
Popular Question
to
Gordon Smyth
52k
Popular Question
to
Koen Van den Berge
▴ 180
Locations
• All
WEHI, Melbourne, Australia,
16 minutes ago
United States,
1 hour ago
United States,
1 hour ago
United States,
2 hours ago
United States,
2 hours ago
Traffic: 718 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6