Bioconductor Vranges

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somaticsignatures vranges readvcfasvranges

6.4 years ago guillaume.dachy • 0

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2.0k

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variantannotation vcf readvcf vranges

updated 6.6 years ago by Michael Lawrence ★ 11k • written 6.6 years ago by david.mas • 0

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1.4k

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variantannotation VRanges R Rle

updated 6.6 years ago by Valerie Obenchain ★ 6.8k • written 6.6 years ago by Jayendra Shinde • 0

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2.0k

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somaticsignatures somaticsignatures package readvcfasvranges vranges

7.5 years ago • updated 7.4 years ago guillaume.dachy • 0

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1.5k

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vranges vcf to vranges

8.0 years ago Bogdan ▴ 670

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2.1k

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somaticsignatures vranges

updated 8.6 years ago by Julian Gehring ★ 1.3k • written 8.6 years ago by arsala521 ▴ 10

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1.7k

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granges vranges readvcfasvranges somaticsignatures

updated 8.8 years ago by Michael Lawrence ★ 11k • written 8.8 years ago by jpluta26 • 0

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2.4k

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SomaticSignatures mutationContext VRanges

updated 9.4 years ago by Julian Gehring ★ 1.3k • written 9.4 years ago by tesa.severson ▴ 10

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2.6k

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variantannotation vranges readvcf readvcfasvranges metadata

9.9 years ago summerela • 0

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3.5k

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variantannotation granges DNAStringSetList findoverlaps Vranges

9.9 years ago summerela • 0

10 results • Page 1 of 1

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Answer: Unable to find sample sheet file for ChAMP methylation data analysis by James W. MacDonald 67k

There is an example file in the extdata directory of the `minfiData` package that you could emulate.

Comment: Rain error: invalid annotation of time points by Dominik • 0

Hi, I kept running into the same issue until I double checked their help and understood, that columns and rows have to be designed in anoth…

Answer: How to generate circular cnetplot and color nodes and edges in the same plot ? by Guido Hooiveld ★ 4.1k

Since the release of `enrichplot` of October 2024, the code of the function `cnetplot` has been completely rewritten by Guangchuang in orde…

Comment: CUT&Tag differential peak analysis using Diffbind, with pre-calculated normaliza by mec25 • 0

I am unable to find the math behind the dba.normalize(), for instance when the E-coli fraction is used is the signal mutliplied by the fact…

Comment: How to sort negative log2FC or FC in RNAseq for GSEA? by Quang NN ▴ 10

Thank you so much for taking time to provide this clarification!

Votes

Answer: DESeq2- merging technical vs biological replicates

Answer: SingleCellExperiment convenience function for metadata+expression?

How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.

Answer: EdgeR Biological CVs

Answer: Error in download.file for TCGAutils::symbolsToRanges

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