Bioconductor Locatevariants

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MetID TxDB.Hsapiens.UCSC.hg38.knownGene locateVariants GenomicFeatures VariantAnnotation

23 months ago davidhillis • 0

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814

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genomiclocation canonicaltranscripts locateVariants

updated 3.5 years ago by James W. MacDonald 68k • written 3.5 years ago by Paola • 0

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1.7k

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variantannotation locatevariants metadata mcols

updated 7.2 years ago by Valerie Obenchain ★ 6.8k • written 7.2 years ago by enricoferrero ▴ 680

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1.4k

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variantannotation predict coding locateVariants granges

7.3 years ago tony j • 0

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1.9k

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locatevariants txdb.hsapiens.ucsc.hg19.knowngene variantannotation

7.5 years ago Aleksandra • 0

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1.7k

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txdb.hsapiens.ucsc.hg19.knowngene ucsc annotation locatevariants variantannotation

updated 7.7 years ago by Valerie Obenchain ★ 6.8k • written 7.7 years ago by Lna • 0

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3.0k

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locatevariants variantannotation genomicfeatures

updated 8.3 years ago by Michael Lawrence ★ 11k • written 8.3 years ago by Lna • 0

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2.5k

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variantannotation locatevariants

9.5 years ago Jakob Goldmann • 0

8 results • Page 1 of 1

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Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k

No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…

Answer: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k

I strongly recommend to not concern yourself with these sorts of marginal problems because you're entering a realm in which you're entirely…

Comment: Problem using locateVariants() from the VariantAnnotation package by Marco • 0

Ok, I think I found the problem. By looking at the `locateVariants()` source code, I was able to pinpoint that the problems is when trying …

Comment: Conumee for EPIC and EPICv2 copy number by Adam • 0

As described on the [github](https://github.com/hovestadtlab/conumee2) the way to do this is using array_type = c("EPIC", "EPICv2") This i…

Comment: graper 1.22 Build is Broken by shepherl 4.1k

This is not an appropriate place to report this. this is for usage questions. maintainers are notified automatically when it is failing on …

Votes

A: Unbalanced experiment with multiple samples from each patient.

Unbalanced experiment with multiple samples from each patient.

Answer: Vertical line at A=0, nothing else, on MA plot

Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct

Answer: Group-specific condition effects with individuals nested: matrix is not full ra

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Popular Question to Matthew McCormack ▴ 180

Popular Question to James W. MacDonald 68k