Bioconductor Ncbi geo

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NCBI GEO

updated 4.5 years ago by SAn • 0 • written 9.3 years ago by maedakus ▴ 10

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geoquery ncbi geo biobase

6.5 years ago cschot3 • 0

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limma differential gene expression ncbi geo affymetrix microarrays

updated 6.5 years ago by Aaron Lun ★ 28k • written 6.5 years ago by Francesca McGrath • 0

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frma barcode geneexpression gsm ncbi geo

updated 7.5 years ago by Matthew McCall ▴ 830 • written 7.5 years ago by diana.elassal • 0

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limma microarray bioconductor ncbi geo

updated 8.3 years ago by Gordon Smyth 52k • written 8.3 years ago by kevin.m.hao ▴ 10

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5.2k

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geoquery ncbi geo geo data

8.5 years ago fongchunchan ▴ 30

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Comment: parameters of filterByExpr by Paul Harrison ▴ 110

It might be worth trying limma-voom (or limma-trend) instead of a GLM based method. In our experience these are less prone to this problem.…

Comment: limma::voom vs edgeR::voomLmFit - when to use? by Gordon Smyth 52k

voomLmFit() is in edgeR instead of limma because it needs to call edgeR::glmFit() internally to determine which of the zero observations al…

Comment: limma::voom vs edgeR::voomLmFit - when to use? by Geoff • 0

Just wondering--why was this function put into `edgeR` rather than `limma`? Maybe a bit technical, but it is a little confusing from an out…

Comment: cannot download atena annotation for human by Davide • 0

Hi Robert, I was able to solve the problem. Indeed, it stems from the co-occurrence of two different AnnotationHub available for hg38. …

Comment: Setting ylims in bam coverage plot and assigning compound sashimi numbers to ove by macdonaldfrench7286566 • 0

Regarding the ylim for the coverage [space waves][1], have you tried accessing the ylim slot of the CoverageTrack object after you've creat…

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Comment: parameters of filterByExpr

GAlignments Cigar to GRanges

Answer: GAlignments Cigar to GRanges

parameters of filterByExpr

Answer: parameters of filterByExpr

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