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MNN
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3
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6
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3.9k
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Carry over variable features when converting FastMNN SCE object to Seurat object
mnn
batchelor
scrna-seq
seurat
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
heir_of_isildur88
• 0
2
votes
2
replies
2.4k
views
Subclustering after MNN batch-correction
batchelor
mnn
scrna-seq
updated 2.8 years ago by
Guandong Shang
▴ 40 • written 5.4 years ago by
heir_of_isildur88
• 0
2
votes
1
reply
2.6k
views
Batch Corrections (MNN) with TPM values
scRNA-Seq
scater
scran
rna-seq
MNN
updated 5.6 years ago by
Aaron Lun
★ 28k • written 5.6 years ago by
hamza_karakurt
▴ 60
0
votes
2
replies
1.2k
views
Help with the output from mnnCorrect
mnnCorect
MNN
5.6 years ago
sharvari gujja
▴ 40
4 results • Page
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Comment: parameters of filterByExpr
by
caroline.zanchi
▴ 10
Ah yes sorry :) But then I still do not understand why is it that on the plot I attached, the gene definitely has non-0 counts in less than…
Answer: Typo in the help of lmFit()
by
Gordon Smyth
52k
Thanks for the heads-up. > The _Details_ in the documentation of lmFit() still says that the default correlation is 0.75 Yes, you're righ…
Comment: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm
by
caroline.zanchi
▴ 10
Thank you ! ![enter image description here][1] In the end I did ```r rn2 <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "GENENAME"…
Answer: Memory issue while using "quickcluster" and "computeSumFactors" functions on sin
by
James W. MacDonald
68k
The obvious solution is to use cloud computing, which is likely cheaper than getting more RAM for your computer.
Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm
by
James W. MacDonald
68k
``` library(org.Dm.eg.db) rn <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "SYMBOL","FLYBASE") ## ensure no NA values get propaga…
Votes
Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm
Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm
Deseq2 DE analysis of host-pathogen samples (model separately or jointly?)
Comment: Check removeBatchEffect effectiveness
Answer: Check removeBatchEffect effectiveness
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