Bioconductor Snps

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3.0k

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snps VCF

updated 2.6 years ago by Arafat • 0 • written 7.8 years ago by rkdonthu ▴ 10

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747

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hierClust R SNPs clustering

updated 2.7 years ago by James W. MacDonald 67k • written 2.7 years ago by sekhwal • 0

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1.1k

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SNPs

5.7 years ago pltbiotech_tkarthi • 0

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1.4k

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snps vcf venn diagram ggplot2

6.0 years ago mictadlo ▴ 10

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1.4k

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bioconductor molecular biology snps

updated 6.0 years ago by James W. MacDonald 67k • written 6.1 years ago by jebreen20 • 0

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2.9k

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motifbreakR vcf snps motif analysis

updated 6.5 years ago by Valerie Obenchain ★ 6.8k • written 6.5 years ago by svlachavas ▴ 840

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1.6k

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variantannotation SNPs txdb.hsapiens.ucsc.hg19.knowngene ucsc

updated 7.5 years ago by Valerie Obenchain ★ 6.8k • written 7.5 years ago by Lna • 0

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1.6k

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hsapiens snps indels

updated 9.0 years ago by Hervé Pagès 16k • written 9.1 years ago by kredens • 0

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1.7k

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Biostrings SNPs alignment

updated 9.4 years ago by Hervé Pagès 16k • written 9.4 years ago by ben.ward ▴ 30

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2.0k

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gviz ideogram snps

updated 9.9 years ago by florian.hahne@novartis.com ★ 1.6k • written 9.9 years ago by vnyirongo • 0

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2.4k

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overlap snps granges iranges

updated 10.2 years ago by Michael Lawrence ★ 11k • written 10.2 years ago by anastasiya-terskih ▴ 10

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Answer: Error in get_anno_data(ontology) : ontology not supported yet... by Guido Hooiveld ★ 4.1k

Did you check the help page for the function `enrichDO`? Type `?enrichDO`. I am asking, because there it is stated that the argument `ont`…

Comment: Build error on kunpeng2 Linux aarch64 by martin.grigorov ▴ 10

Hi, There was a problem with `icu` and because of that the (r)curl library was not installed. The system/OS curl library is one version ol…

Answer: Standardization of rlog transformed counts before PCA by ATpoint ★ 4.6k

I guess you mean scaling in terms of Z-scoring? There are plenty of posts towards scaling in PCA both here on Bioconductor and in other com…

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Tim Peters ▴ 200

Also, re DMR.plot(), yes the understanding is that all DMRs from EPICv2 should be plotted in hg38. I've left that implied for the user sinc…

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Tim Peters ▴ 200

Hi Xiaofei, Thanks for this. If your data is from 450K, you'll have to call your DMRs in hg19, and then lift the DMR ranges over to hg38 p…

Votes

Comment: Can we get beta values with DMRcate package

Answer: Can we get beta values with DMRcate package

DiffBind giving different results from dba.report() and dba.analyze(..., bRetrieveAnalysis=TRUE)

Answer: Deseq2 Design

Answer: Fold change calculation in Diffbind vs. DESEQ2?

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Popular Question to martin.grigorov ▴ 10

Scholar to James W. MacDonald 67k