Bioconductor Liftover

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744

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liftOver SNP GWASTools

21 months ago bonheur • 0

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2.0k

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lifto liftOver

updated 2.6 years ago by Marcel Ramos 700 • written 2.6 years ago by james.dalgleish • 0

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2.0k

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liftOver rtracklayer

updated 3.9 years ago by James W. MacDonald 67k • written 3.9 years ago by Mikhail Dozmorov ▴ 30

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1.8k

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liftOver

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

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1.1k

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liftOver

4.1 years ago geneprophet • 0

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1.5k

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hg19 liftover matrixeqtl DMRcate

updated 5.6 years ago by James W. MacDonald 67k • written 5.6 years ago by yoursbassanio ▴ 10

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1.4k

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rtracklayer export.bw liftover

updated 6.1 years ago by Michael Lawrence ★ 11k • written 6.1 years ago by ang ▴ 20

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1.4k

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rtracklayer liftOver parameters minMatch

updated 6.7 years ago by Michael Lawrence ★ 11k • written 6.7 years ago by Nik dAK ▴ 10

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3.2k

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rtracklayer liftover bioconductor R

updated 7.3 years ago by Michael Lawrence ★ 11k • written 7.4 years ago by m.guelfi • 0

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1.9k

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liftover rtracklayer

updated 7.4 years ago by Michael Lawrence ★ 11k • written 7.4 years ago by beausoleilmo • 0

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2.5k

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software error liftOver workflowinstall package installation

updated 8.2 years ago by James W. MacDonald 67k • written 8.2 years ago by JustGettinStarted • 0

11 results • Page 1 of 1

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Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k

limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k

Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…

Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60

Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k

For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0

Thanks for your reply!

Votes

C: edgeR and lack of counts ID on CPM matrix

A: DESeq2 Following RSEM

A: importing RSEM data into DESeq2

A: Expected counts from RSEM in DESeq2

A: Using RSEM reads for DESeq2

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