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dropseq
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How to properly normalize a single-cell sparse matrix?
Dropseq
single-cell
normalization
sparse
updated 7.6 years ago by
Aaron Lun
★ 28k • written 7.6 years ago by
ssabri
▴ 20
1
vote
5
replies
1.2k
views
about DropletUtils and scRNA-seq
dropseq
dropletutils
droplet
updated 5.3 years ago by
Aaron Lun
★ 28k • written 5.3 years ago by
Bogdan
▴ 670
2
votes
3
replies
2.1k
views
Using MAST with DropSeq data
MAST
mast
dropseq
updated 6.2 years ago by
Andrew_McDavid
▴ 270 • written 6.2 years ago by
jeremycfd
▴ 10
3 results • Page
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Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
HAK
• 0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
by
ATpoint
★ 4.1k
Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…
Comment: Store output of matchPWM()
by
James W. MacDonald
65k
Here's a self contained reproducible example, using part of the example in `?matchPWM` ``` > library(Biostrings) > data(HNF4alpha) > libr…
Comment: DEseq2 coefficient
by
JKim
• 0
Hi Dr. Love, I'm sorry to ask another question to my old post. If the design isn't balanced, the interpretation of coefficients will be…
Votes
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
C: Extremely big genes in annotation TxDb packages
Make custom Txdb class objects from Txdb
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