Bioconductor Meme

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pwm motifs jaspar meme motif analysis

7.2 years ago rbronste ▴ 60

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meme ame motif dataframe granges

updated 7.3 years ago by Michael Lawrence ★ 11k • written 7.3 years ago by rbronste ▴ 60

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motifstack meme

7.9 years ago aramp10 • 0

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motifstack meme

updated 7.9 years ago by Ou, Jianhong ★ 1.3k • written 7.9 years ago by lmolla ▴ 10

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motfdb pwmenrich meme

9.9 years ago enricoferrero ▴ 680

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1.8k

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illumina 450k motifs meme

10.1 years ago Gustavo Fernández Bayón ▴ 440

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5.0k

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motif motifdb meme

updated 10.3 years ago by Hervé Pagès 16k • written 10.3 years ago by vinod.acear ▴ 50

7 results • Page 1 of 1

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Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ? by Gordon Smyth 53k

I tend to use dpcCN(), because it more robust than dpc() to experiments with lots of samples and big differences between samples. You coul…

Answer: Which preprocessing steps are needed before running limpa? by Gordon Smyth 53k

Please see the example limpa analyses given at <http://github.com/smythlab/limpa>, especially the kidney cancer case study. limpa does not…

Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name by Korneel • 0

Thanks for the quick reply! If I understand correctly, I think if I keep track of the full lineage, I shouldn't have any risk of collapsin…

Comment: Pathway abundance data from Curatedmetagenomics by yesquokkan • 0

Hello, I was also wondering about the same issue. Did you figure it out?

Comment: [DESeq2] Changing dispersion estimates between runs of DESeq2 by colinmccornack • 0

FWIW: This seems to be due to architectural differences between two compute nodes I was running on, specifically with the DESeq2:::fitNbino…

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Answer: Which preprocessing steps are needed before running limpa?

Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?

Answer: Which preprocessing steps are needed before running limpa?

Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?

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Popular Question to Peter Hickey ▴ 760