Bioconductor DistanceToNearest

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942

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rtracklayer ranges distanceToNearest

11 months ago robjohn70000 • 0

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942

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GenomicRanges GenomicFeatures grange distanceToNearest R

5.1 years ago rmash ▴ 20

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1.3k

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GenomicRanges distancetonearest strandedness

updated 6.7 years ago by Valerie Obenchain ★ 6.8k • written 6.7 years ago by shraddha.pai • 0

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GRanges distancetonearest

updated 7.0 years ago by Julie Zhu ★ 4.3k • written 7.0 years ago by chitsazanalex ▴ 10

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chipenrich granges distancetonearest function dataframe

7.1 years ago rbronste ▴ 60

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2.3k

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genomicranges DistanceToNearest

updated 8.3 years ago by Valerie Obenchain ★ 6.8k • written 8.3 years ago by roladali ▴ 20

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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…

Votes

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

A: Expected counts from RSEM in DESeq2

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