Bioconductor Girafe

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girafe girafe

updated 12.8 years ago by Sean Davis 21k • written 12.8 years ago by chunjiang he ▴ 80

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Annotation annotate biomaRt IRanges girafe Annotation annotate biomaRt IRanges girafe

updated 13.9 years ago by Joern Toedling ▴ 450 • written 13.9 years ago by Andreia Fonseca ▴ 810

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1.1k

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girafe girafe

updated 13.9 years ago by Steve Lianoglou ★ 13k • written 13.9 years ago by Andreia Fonseca ▴ 810

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1.3k

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edgeR girafe edgeR girafe

updated 13.1 years ago by Chris Fields ▴ 90 • written 13.1 years ago by karlerhard@berkeley.edu ▴ 60

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edgeR girafe edgeR girafe

updated 13.1 years ago by Hervé Pagès 16k • written 13.1 years ago by karlerhard@berkeley.edu ▴ 60

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BSgenome hexbin BSgenome IRanges genomeIntervals GenomicRanges girafe Rsamtools HiTC HiTC

updated 11.1 years ago by Dan Tenenbaum ★ 8.2k • written 11.1 years ago by Wim Kreinen ▴ 100

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855

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Alignment annotate girafe Alignment annotate girafe

updated 13.9 years ago by Joern Toedling ▴ 450 • written 13.9 years ago by Andreia Fonseca ▴ 810

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867

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Annotation girafe Annotation girafe

updated 13.1 years ago by Hervé Pagès 16k • written 13.1 years ago by karlerhard@berkeley.edu ▴ 60

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934

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girafe girafe

updated 13.0 years ago by Joern Toedling ▴ 10 • written 13.0 years ago by karlerhard@berkeley.edu ▴ 60

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863

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Annotation girafe Annotation girafe

updated 12.5 years ago by Joern Toedling ▴ 50 • written 12.5 years ago by karlerhard@berkeley.edu ▴ 60

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Comment: Although I successfully installed the package "simpleaffy'' , I cannot library i by fatinataly • 0

I tried also with oligo does not work, any other suggestion?

Comment: More regions in union when increasing DBA$config$mergeOverlap by Ian D. ▴ 70

Hello. Thanks for the reply. Sorry about this. My testing is telling me that 1 is the default (a gap), not -1 (1bp overlap). Negative …

Comment: Differences in differential analysis methods for RNA-Seq by ATpoint ★ 4.1k

> I am just re-processing due to being uncertain about how they used the edgeR analysis to reach gene level edgeR devs published something…

Comment: Differences in differential analysis methods for RNA-Seq by james.zhang20 • 0

Thanks for the explanations, it has helped clarify some things. Unfortunately, I am working from an early access public dataset (https://do…

Answer: Deseq2 and Normalization of RNA sequencing data by ATpoint ★ 4.1k

There is no expectation of normality that is realistic in terms of expression level. Levels are widely different between genes, and counts …

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A: Error in DESeqDataSet : some values in assay are not integers

Bioconductor 3.19 is Released!

Answer: DEseq2 coefficient

SPIA plotP giving error

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Popular Question to rohitsatyam102 ▴ 20