Bioconductor MatchPattern

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matchPattern automatic Biostrings for-loop

3.7 years ago adklts • 0

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searching siRNA sequence human genome GenomicAlignment Biostrings matchPattern

updated 4.9 years ago by ATpoint ★ 4.6k • written 4.9 years ago by stephen66 ▴ 50

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Biostrings patternmatch biostrings matchpattern

updated 8.9 years ago by Hervé Pagès 16k • written 8.9 years ago by Stefanie Tauber ▴ 40

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bsgenome matchPattern

updated 9.5 years ago by Hervé Pagès 16k • written 9.5 years ago by msmithmailbox ▴ 20

4 results • Page 1 of 1

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Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40

Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …

Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k

limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k

Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…

Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60

Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k

For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…

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Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio

C: edgeR and lack of counts ID on CPM matrix

A: DESeq2 Following RSEM

A: importing RSEM data into DESeq2

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