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nanopore
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support for reading direct RNA-Seq FASTQs
ShortRead
nanopore
2.8 years ago
kent.riemondy
▴ 20
0
votes
0
replies
996
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Job:
REBIT-POD EMBL-IIT postdoctoral fellowships between Italy and UK
nanopore
job
EMBL
IIT
Job
5.7 years ago
mattia pelizzola
▴ 200
11
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10
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5.0k
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Is it appropriate to use DESeq2 to analyse MinION data that's been mapped to a transcriptome?
deseq2
nanopore
5.8 years ago
David Eccles (gringer)
▴ 30
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Answer: SingleR with multiple single cell references
by
Aaron Lun
★ 28k
> Is it necessary to piece together the individual steps manually (e.g. aggregateReference, trainSingleR, classifySingleR, combineRecompute…
Answer: Automatically install dependencies
by
ATpoint
★ 4.7k
The BiocManager, which is sort of an extended wrapper around `install.packages`, installs all R dependencies. If you see errors then this i…
Answer: To count or not to count multi-overlapping reads?
by
Gordon Smyth
52k
> How does it handle reads that map to a gene that is located in a region that also has another gene but on the alternate strand? Overlapp…
Comment: Weird p-values using DESeq2?
by
ATpoint
★ 4.7k
This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…
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A: Volcanoplot with limma - RAW P-values or Adj.P-Values
A: Fraction count for multi mapping reads; how to generate input file for Deseq2 fo
Comment: Weird p-values using DESeq2?
Comment: Overcoming confounding in batch effect correction
Answer: Store Matrix in DataFrame Cell
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