Bioconductor Liftover

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778

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liftOver SNP GWASTools

22 months ago bonheur • 0

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2.1k

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lifto liftOver

updated 2.7 years ago by Marcel Ramos 700 • written 2.7 years ago by james.dalgleish • 0

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2.0k

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liftOver rtracklayer

updated 4.0 years ago by James W. MacDonald 67k • written 4.0 years ago by Mikhail Dozmorov ▴ 30

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1.8k

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liftOver

updated 4.2 years ago by shepherl 4.1k • written 4.2 years ago by bluepebbles • 0

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1.1k

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liftOver

4.2 years ago geneprophet • 0

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1.5k

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hg19 liftover matrixeqtl DMRcate

updated 5.7 years ago by James W. MacDonald 67k • written 5.7 years ago by yoursbassanio ▴ 10

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1.5k

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rtracklayer export.bw liftover

updated 6.2 years ago by Michael Lawrence ★ 11k • written 6.2 years ago by ang ▴ 20

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1.4k

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rtracklayer liftOver parameters minMatch

updated 6.8 years ago by Michael Lawrence ★ 11k • written 6.8 years ago by Nik dAK ▴ 10

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3.3k

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rtracklayer liftover bioconductor R

updated 7.5 years ago by Michael Lawrence ★ 11k • written 7.5 years ago by m.guelfi • 0

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1.9k

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liftover rtracklayer

updated 7.5 years ago by Michael Lawrence ★ 11k • written 7.5 years ago by beausoleilmo • 0

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2.6k

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software error liftOver workflowinstall package installation

updated 8.3 years ago by James W. MacDonald 67k • written 8.3 years ago by JustGettinStarted • 0

11 results • Page 1 of 1

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Comment: How to visualize these pathways using pathview by Guido Hooiveld ★ 4.1k

FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…

Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10

I see. Thank you ATpoint!

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Prakash Sah • 0

Thanks James!

Comment: Why select top highly expressed genes based on normalized counts, but then plot by ATpoint ★ 4.6k

I think I explained what the differences between approach 1 and 2 is in my answer. I assume that the tutorial uses vst because it is varian…

Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10

Thank you ATpoint for your responses. I am a bit confused because the difference between the two approaches is the selection of the genes…

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Comment: can't install tscR

Answer: Csaw normalization strategies - general inquiry

A: DESeq2 interaction term

Comment: Recount3 data correspond to TCGA data

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