Bioconductor FilterVcf

Showing : filterVcf • reset

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3.4k

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variantannotation vcf readvcf filtervcf scanvcfparam

8.3 years ago Didi ▴ 10

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filtervcf

updated 8.9 years ago by Martin Morgan 25k • written 8.9 years ago by Bogdan ▴ 670

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filtervcf variantannotation

updated 9.1 years ago by Martin Morgan 25k • written 9.1 years ago by stephen sefick ▴ 60

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variantannotation filtervcf

updated 10.1 years ago by Michael Lawrence ★ 11k • written 10.1 years ago by TimothéeFlutre ▴ 80

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variantannotation vcf filtervcf

updated 10.1 years ago by Martin Morgan 25k • written 10.1 years ago by TimothéeFlutre ▴ 80

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variantannotation filtervcf vcf

updated 10.1 years ago by Michael Lawrence ★ 11k • written 10.1 years ago by TimothéeFlutre ▴ 80

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VariantAnnotation filterVcf ScanVcfParam vcf writeVcf

updated 10.3 years ago by Martin Morgan 25k • written 10.3 years ago by pau.puigdevall • 0

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VariantAnnotation filterVcf

10.3 years ago pau.puigdevall • 0

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variantannotation filterVcf readvcfasvranges filterRules

updated 10.8 years ago by Martin Morgan 25k • written 10.8 years ago by Sigve Nakken ▴ 50

9 results • Page 1 of 1

Recent ...

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Answer: PTM analysis in LIMPA by Gordon Smyth 53k

For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…

Answer: problem reading bam files into nucleR by James W. MacDonald 68k

The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…

Answer: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k

It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …

Comment: problem reading bam files into nucleR by efoss ▴ 10

I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…

Answer: two questions about limma by Gordon Smyth 53k

Answered here: https://support.bioconductor.org/p/16318/

Votes

C: DESeq2 Following RSEM

Upcoming Ensembl API and data access changes - new blog post available

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

Awards • All

Commentator to sina.nassiri ▴ 130