Bioconductor FastMNN

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900

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fastMNN SingleCellData BatchEffect batchelor

6 months ago José • 0

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1.5k

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scanpy scRNAseq fastmnn r

2.6 years ago Madiha • 0

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1.7k

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batchelor fastMNN scRNAseq

2.8 years ago Guandong Shang ▴ 40

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2.7k

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scater batchelor scRNAseq fastMNN

updated 2.8 years ago by Aaron Lun ★ 28k • written 2.8 years ago by Guandong Shang ▴ 40

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1.5k

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fastmnn batchelor BatchEffect

3.6 years ago p.joshi ▴ 40

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1.6k

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fastmnn scater batchelor

updated 4.9 years ago by Aaron Lun ★ 28k • written 4.9 years ago by ATpoint ★ 4.8k

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821

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fastMNN Interpretation

4.9 years ago mloza ▴ 10

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1.4k

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batchelor batch-correction mnncorrect fastmnn rna-seq

updated 5.1 years ago by Aaron Lun ★ 28k • written 5.7 years ago by firestar ▴ 20

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1.9k

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fastMNN CITE-seq ADT-seq batchelor REAP-seq

updated 5.1 years ago by Aaron Lun ★ 28k • written 5.1 years ago by sorjuelal • 0

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1.7k

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SCRAN fastMNN mnnCorrect

updated 6.8 years ago by Aaron Lun ★ 28k • written 6.8 years ago by tobi • 0

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Comment: DiffBind - question on the use of filtered or unfiltered input data by sloperun3az • 0

Your essay was beneficial to me, and I found it to be very useful. Thank you for writing it. You give a wealth of knowledge that is not onl…

Comment: compute_fasta_digest does not match Salmon index hash by sloperun3az • 0

The people who are reading your work are not taken into consideration, even though you appear to have a solid understanding of the subject …

Comment: parameters of filterByExpr by Paul Harrison ▴ 110

It might be worth trying limma-voom (or limma-trend) instead of a GLM based method. In our experience these are less prone to this problem.…

Comment: limma::voom vs edgeR::voomLmFit - when to use? by Gordon Smyth 52k

voomLmFit() is in edgeR instead of limma because it needs to call edgeR::glmFit() internally to determine which of the zero observations al…

Comment: limma::voom vs edgeR::voomLmFit - when to use? by Geoff • 0

Just wondering--why was this function put into `edgeR` rather than `limma`? Maybe a bit technical, but it is a little confusing from an out…

Votes

Comment: Check removeBatchEffect effectiveness

Answer: Check removeBatchEffect effectiveness

A: what should I do with many zero counts from Salmon quantification

Comment: parameters of filterByExpr

GAlignments Cigar to GRanges

Awards • All

Scholar to James W. MacDonald 68k