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 :
batchelor
•
reset
0
votes
2
replies
530
views
Integration of Single Cell Experiments with batchelor::fastMNN
fastMNN
SingleCellData
BatchEffect
batchelor
11 weeks ago • updated 10 weeks ago
José
• 0
2
votes
2
replies
428
views
Should tSNE from biol. replicates look alike?
scRNAseq
SingleCellExperiment
batchelor
written 4 months ago by
Jose Guillen
▴ 10
0
votes
6
replies
1.0k
views
fastMNN reproducibility across machines when using Docker
batchelor
18 months ago
nils.eling
▴ 10
4
votes
2
replies
1.5k
views
how to do downstram analysis to cells which are subsetted after MNN batch-correction
batchelor
fastMNN
scRNAseq
2.4 years ago
Guandong Shang
▴ 40
0
votes
4
replies
2.5k
views
how to make the "reconstructed" value in intergated scRNA-seq UMAP plot more readable
scater
batchelor
scRNAseq
fastMNN
updated 2.4 years ago by
Aaron Lun
★ 28k • written 2.4 years ago by
Guandong Shang
▴ 40
1
vote
5
replies
1.5k
views
batch effect
TargetScoreData
batchelor
written 2.4 years ago by
Syed Zaheer
▴ 10
2
votes
7
replies
1.9k
views
batchelor correctExperiments() returns Error in eval(subscript, envir = eframe, enclos = eframe) : '...' used in an incorrect context
batchelor
2.6 years ago • updated 2.5 years ago
pcantalupo
▴ 10
2
votes
2
replies
1.3k
views
Does MNN removes same average batch vector from all cells or each cell has it's own correction vector?
fastmnn
batchelor
BatchEffect
3.3 years ago
p.joshi
▴ 40
0
votes
2
replies
1.8k
views
Error coercing LowRankMatrix to dgCMatrix
BiocSingular
zellkonverter
batchelor
updated 4.0 years ago by
luke.zappia
▴ 50 • written 4.0 years ago by
jma1991
▴ 70
0
votes
2
replies
1.7k
views
Removal of cell cycle effect using batchelor::regressBatches() and proper usage of corrected UMI matrix
scRNAseq
batchelor
SingleCell
SingleCellExperiment
scran
4.1 years ago
jirkanov
• 0
1
vote
1
reply
1.2k
views
Combining treatment and control batches for analysis
scRNAseq
scRNA
batchelor
BatchEffect
updated 4.1 years ago by
Aaron Lun
★ 28k • written 4.1 years ago by
Adrien
• 0
2
votes
3
replies
2.2k
views
multiBatchNorm vs. calculateSumFactors on concatenated dataset
batchelor
scran
updated 4.4 years ago by
Aaron Lun
★ 28k • written 4.4 years ago by
Angelos Armen
• 0
3
votes
3
replies
2.9k
views
Cell cycle regression for scRNA-seq data
OSCA
batchelor
cell cycle regression
updated 4.4 years ago by
Aaron Lun
★ 28k • written 4.4 years ago by
ATpoint
★ 4.6k
2
votes
6
replies
1.4k
views
Why is an averaged reference used in DESeq2 normalisation?
deseq2
scran
batchelor
updated 4.5 years ago by
Aaron Lun
★ 28k • written 4.5 years ago by
Angelos Armen
• 0
3
votes
1
reply
1.4k
views
Scaling option in fastMNN
fastmnn
scater
batchelor
updated 4.6 years ago by
Aaron Lun
★ 28k • written 4.6 years ago by
ATpoint
★ 4.6k
3
votes
6
replies
3.5k
views
Carry over variable features when converting FastMNN SCE object to Seurat object
mnn
batchelor
scrna-seq
seurat
updated 4.6 years ago by
Aaron Lun
★ 28k • written 4.6 years ago by
heir_of_isildur88
• 0
2
votes
1
reply
1.3k
views
batchelor batch correction correction runs into errors
batchelor
batch-correction
mnncorrect
fastmnn
rna-seq
updated 4.7 years ago by
Aaron Lun
★ 28k • written 5.4 years ago by
firestar
▴ 20
3
votes
3
replies
1.7k
views
MNN batch correction of pre-computed PCA
single cell
batchelor
updated 4.7 years ago by
Aaron Lun
★ 28k • written 4.7 years ago by
tahvdbrand
▴ 10
1
vote
2
replies
1.7k
views
how to integrate multiple samples from ADT-seq (CITE-seq) with fastMNN
fastMNN
CITE-seq
ADT-seq
batchelor
REAP-seq
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
sorjuelal
• 0
0
votes
4
replies
1.4k
views
How to perform batch correction on scRNA-seq with confounding plate effects?
batchelor
updated 22 months ago by
Ivo Kwee
• 0 • written 4.8 years ago by
jashmore
• 0
2
votes
2
replies
2.0k
views
Subclustering after MNN batch-correction
batchelor
mnn
scrna-seq
updated 2.4 years ago by
Guandong Shang
▴ 40 • written 5.0 years ago by
heir_of_isildur88
• 0
21 results • Page
1 of 1
Recent ...
Replies
Answer: Correlation between gene clusters
by
rollkenvin
• 0
With sharp graphics, [Sprunki Phase 3][1] creates an attractive and engaging environment for players. [1]: https://sprunkiphase3.io/
Comment: EuroBioC2023 abstract submission closing soon!
by
Jeremy
• 0
Thanks for the reminder! If you're a Bioconductor user or developer, make sure to [tabs][1] submit your abstract by the deadline, Monday, A…
Comment: Mean variance curve troubleshoot filtering
by
gingergeiger22
• 0
Gordon, thank for your response. 'filterByExpr()' was marginally better. I can see high variability in samples within the groups from the M…
Comment: What is the importance of `--countReadPairs` in featureCounts on paired end data
by
rohitsatyam102
▴ 20
Since I don't know which organism you are working on, I would recommend using the following: `-s 0` if library is unstranded `-C` Discard…
Comment: What is the importance of `--countReadPairs` in featureCounts on paired end data
by
rohitsatyam102
▴ 20
Yes use this option. It is recommended for PE and if you don't use it you will observe nearly twice the number of counts in your results. H…
Votes
Comment: Comparing different method for DESEQ2
Answer: How do I fix an odd voom plot in a combined dataset?
Answer: How do I fix an odd voom plot in a combined dataset?
Comment: How do I fix an odd voom plot in a combined dataset?
C: How does edgeR cpm function calculate log(CPM) values?
Awards
• All
Popular Question
to
Ken C
• 0
Popular Question
to
gingergeiger22
• 0
Popular Question
to
Gordon Smyth
52k
Popular Question
to
James W. MacDonald
67k
Popular Question
to
Chris
▴ 20
Locations
• All
Macao,
just now
The city by the bay,
1 hour ago
Vietnam,
1 hour ago
Hong Kong,
2 hours ago
2609 Tranquil Ave NW, Olympia WA-98502, United States,
3 hours ago
Traffic: 574 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