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fastMNN
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1.1k
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Integration of Single Cell Experiments with batchelor::fastMNN
fastMNN
SingleCellData
BatchEffect
batchelor
13 months ago
José
• 0
0
votes
3
replies
1.8k
views
scRNA-seq: RS4' object has no attribute 'T'" in fastMNN R function
scanpy
scRNAseq
fastmnn
r
3.2 years ago
Madiha
• 0
4
votes
2
replies
1.9k
views
how to do downstram analysis to cells which are subsetted after MNN batch-correction
batchelor
fastMNN
scRNAseq
3.3 years ago
Guandong Shang
▴ 40
0
votes
4
replies
3.0k
views
how to make the "reconstructed" value in intergated scRNA-seq UMAP plot more readable
scater
batchelor
scRNAseq
fastMNN
updated 3.3 years ago by
Aaron Lun
★ 29k • written 3.3 years ago by
Guandong Shang
▴ 40
2
votes
2
replies
1.7k
views
Does MNN removes same average batch vector from all cells or each cell has it's own correction vector?
fastmnn
batchelor
BatchEffect
4.2 years ago
p.joshi
▴ 40
3
votes
1
reply
1.8k
views
Scaling option in fastMNN
fastmnn
scater
batchelor
updated 5.5 years ago by
Aaron Lun
★ 29k • written 5.5 years ago by
ATpoint
★ 5.0k
0
votes
0
replies
920
views
fastMNN reconstructed matrix
fastMNN
Interpretation
5.5 years ago
mloza
▴ 10
2
votes
1
reply
1.6k
views
batchelor batch correction correction runs into errors
batchelor
batch-correction
mnncorrect
fastmnn
rna-seq
updated 5.6 years ago by
Aaron Lun
★ 29k • written 6.3 years ago by
firestar
▴ 20
1
vote
2
replies
2.1k
views
how to integrate multiple samples from ADT-seq (CITE-seq) with fastMNN
fastMNN
CITE-seq
ADT-seq
batchelor
REAP-seq
updated 5.7 years ago by
Aaron Lun
★ 29k • written 5.7 years ago by
sorjuelal
• 0
1
vote
2
replies
1.8k
views
SCRAN - Question: Error when calling cosineNorm through fastMNN
SCRAN
fastMNN
mnnCorrect
updated 7.4 years ago by
Aaron Lun
★ 29k • written 7.4 years ago by
tobi
• 0
10 results • Page
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Answer: problem reading bam files into nucleR
by
James W. MacDonald
68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
Answer: Question about DESeq2 Design for Paired Treatment Study
by
ATpoint
★ 5.0k
It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …
Comment: problem reading bam files into nucleR
by
efoss
▴ 10
I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…
Answer: two questions about limma
by
Gordon Smyth
53k
Answered here: https://support.bioconductor.org/p/16318/
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
by
Ahmed Salah
• 0
Thank you very much! will take that into consideration
Votes
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
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