Bioconductor Seqnames

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3.7k

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Seqnames makeGRangesFromDataFrame GRanges Subsetting GenomicRanges

3.5 years ago rtrivedi1 ▴ 10

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955

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dnastringset dnastringsetlist seqnames

6.1 years ago s.ghignone ▴ 10

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1.2k

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seqnames genomeinfodb

updated 7.6 years ago by Hervé Pagès 16k • written 7.6 years ago by matt.chambers42 ▴ 10

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2.1k

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genomicranges seqnames factor

8.2 years ago wcstcyx ▴ 30

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1.0k

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software error seqnames characters r chipseq

8.6 years ago awakumaya • 0

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17k

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granges genomicranges sort seqnames order

updated 9.7 years ago by yinghua ▴ 30 • written 10.1 years ago by enricoferrero ▴ 660

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6.7k

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GRanges seqnames seqlengths IRanges

10.3 years ago • updated 10.2 years ago topher.hamm • 0

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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…

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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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