Bioconductor DNA

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DNA minfiData minfiDataEPIC DNAMethylation minfi

12 weeks ago user_bioinfo • 0

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897

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DNA repeats

2.3 years ago me-nobody • 0

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1.2k

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TFBSTools DNASeqData readFASTA DNA RStudio

updated 3.5 years ago by James W. MacDonald 68k • written 3.5 years ago by HELEN • 0

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1.4k

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software codon usage bias dna

updated 5.5 years ago by anamaria ▴ 10 • written 5.5 years ago by jol.espinoz ▴ 40

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796

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DNA alphabet

updated 6.2 years ago by James W. MacDonald 68k • written 6.2 years ago by fjia304 • 0

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2.3k

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decipher DNA biostrings

updated 7.4 years ago by Erik Wright ▴ 150 • written 7.4 years ago by reubenmcgregor88 • 0

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3.0k

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biostrings mask repeatmasker DNA

updated 4.3 years ago by ivantsers • 0 • written 7.5 years ago by beausoleilmo • 0

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1.7k

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ABI sequence DNA melting curve

updated 10.0 years ago by Hervé Pagès 16k • written 10.0 years ago by Prasanth ▴ 20

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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…

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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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