Bioconductor Paired-end reads

Showing : paired-end reads • reset

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1.3k

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diffbind paired-end reads

updated 4.5 years ago by Rory Stark ★ 5.2k • written 8.3 years ago by rbronste ▴ 60

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1.9k

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paired-end reads bam file

7.5 years ago ioannis.vardaxis ▴ 30

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1.5k

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dnaseq rtracklayer paired-end reads

7.9 years ago zwfanwz678 • 0

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1.4k

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summarizeoverlaps paired-end reads readGAlignmentPairs

8.1 years ago teresati ▴ 10

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1.1k

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quasr quasr error paired-end reads rnaseq

8.4 years ago guillaume.dachy • 0

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1.3k

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quasr paired-end reads rnaseq

8.4 years ago guillaume.dachy • 0

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1.1k

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quasr rnaseq paired-end reads

8.4 years ago guillaume.dachy • 0

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1.8k

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rsamtools paired-end reads countbam

updated 8.6 years ago by Martin Morgan 25k • written 8.6 years ago by Dario Strbenac ★ 1.6k

8 results • Page 1 of 1

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Comment: Check removeBatchEffect effectiveness by Gordon Smyth 52k

Both of your matrices, `design_batcheffects` and `design_timepoint`, span the intercept term, which will cause a warning about NA coefficie…

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…

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

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