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fastmnn
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scRNA-seq: RS4' object has no attribute 'T'" in fastMNN R function
scanpy
scRNAseq
fastmnn
r
21 months ago
Madiha
• 0
4
votes
2
replies
1.2k
views
how to do downstram analysis to cells which are subsetted after MNN batch-correction
batchelor
fastMNN
scRNAseq
23 months ago
Guandong Shang
▴ 40
0
votes
4
replies
2.1k
views
how to make the "reconstructed" value in intergated scRNA-seq UMAP plot more readable
scater
batchelor
scRNAseq
fastMNN
updated 23 months ago by
Aaron Lun
★ 28k • written 23 months ago by
Guandong Shang
▴ 40
2
votes
2
replies
1.0k
views
Does MNN removes same average batch vector from all cells or each cell has it's own correction vector?
fastmnn
batchelor
BatchEffect
2.8 years ago
p.joshi
▴ 40
3
votes
1
reply
1.2k
views
Scaling option in fastMNN
fastmnn
scater
batchelor
updated 4.0 years ago by
Aaron Lun
★ 28k • written 4.0 years ago by
ATpoint
★ 4.2k
0
votes
0
replies
591
views
fastMNN reconstructed matrix
fastMNN
Interpretation
4.1 years ago
mloza
▴ 10
2
votes
1
reply
1.1k
views
batchelor batch correction correction runs into errors
batchelor
batch-correction
mnncorrect
fastmnn
rna-seq
updated 4.2 years ago by
Aaron Lun
★ 28k • written 4.9 years ago by
rmf
▴ 20
1
vote
2
replies
1.4k
views
how to integrate multiple samples from ADT-seq (CITE-seq) with fastMNN
fastMNN
CITE-seq
ADT-seq
batchelor
REAP-seq
updated 4.3 years ago by
Aaron Lun
★ 28k • written 4.3 years ago by
sorjuelal
• 0
1
vote
2
replies
1.5k
views
SCRAN - Question: Error when calling cosineNorm through fastMNN
SCRAN
fastMNN
mnnCorrect
updated 6.0 years ago by
Aaron Lun
★ 28k • written 6.0 years ago by
tobi
• 0
9 results • Page
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Comment: Trouble Installing DADA2 (warning: R new user)
by
shepherl
3.9k
As far as this ERROR for Bioc requires R version, Bioconductor is closely tied to an R release. Depending if you tried to use a premade s…
Answer: LRT test for different timepoints (one tissue types vs. many tissue types)
by
Michael Love
42k
No, this is a contrast of estimated coefficient (e.g. the Wald test).
Comment: Ranking the GSEA Results
by
Michael Love
42k
Got it. So then I'll take off DESeq2 as its mostly a downstream question. You may need to direct the fgsea developer to the thread. When yo…
Comment: Ranking the GSEA Results
by
V_Vibes
• 0
I have actually used the "fgsea" Bioconductor package which is used for GSEA. Thanks for pointing that out. I have edited that in the origi…
Comment: Ranking the GSEA Results
by
V_Vibes
• 0
The idea was inspired by people ranking the DEGs for preranked GSEA using their log2FC * (-log10 p-value). Also, the GSEA results I am gett…
Votes
Error in `$<-.data.frame`(`*tmp*`, "dispersion", value = NA)
ChiPseeker package: plotAnnoPie identical colors for peakAnnoList features
Comment: How to get the DMR?
Answer: Using both voom and removeBatchEffect, will they double adjust the data or is it
Answer: Using both voom and removeBatchEffect, will they double adjust the data or is it
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