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MNN
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3
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3.4k
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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
2
replies
2.0k
views
Subclustering after MNN batch-correction
batchelor
mnn
scrna-seq
updated 2.4 years ago by
Guandong Shang
▴ 40 • written 4.9 years ago by
heir_of_isildur88
• 0
0
votes
2
replies
1.1k
views
Help with the output from mnnCorrect
mnnCorect
MNN
5.2 years ago
sharvari gujja
▴ 40
2
votes
1
reply
2.4k
views
Batch Corrections (MNN) with TPM values
scRNA-Seq
scater
scran
rna-seq
MNN
updated 5.2 years ago by
Aaron Lun
★ 28k • written 5.2 years ago by
hamza_karakurt
▴ 60
4 results • Page
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Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
by
Michael Love
43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
by
xiaofeiwang198266
• 0
Thanks for your reply!
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
by
Hervé Pagès
16k
> I have requested gDNAx developers for a feature request to turn off seqlevelsStyle(txdb) Yes, that's the right course of action. `seqlev…
Comment: ISO a solution to rank-order introns by transcript
by
mat149
▴ 80
Hey, In revisiting this question, the following code works for the '+' strand. I am having issues with demarcating intron rank by transcri…
Comment: Normalizing batch effects using technical replicates for DGE analysis between tw
by
Gordon Smyth
52k
Since the intra-block correlation is negative, it would be best to remove `block` from the model. My experience with genetically identical…
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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