Bioconductor Maketxdbfrombiomart

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777

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biomart txdb makeTxDbFromBiomart GenomicFeatures

updated 3.7 years ago by James W. MacDonald 63k • written 3.7 years ago by ksomi47 • 0

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1.3k

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R maketxdbfrombiomart maketxdbfromgranges rstudio ensembl

updated 5 months ago by Shreyash • 0 • written 4.8 years ago by rtwest • 0

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1.2k

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software error txdb maketxdbfrombiomart

4.9 years ago katie_emelianova • 0

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1.8k

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genomicfeatures txdb maketxdbfromucsc maketxdbfrombiomart rtracklayer

updated 5.8 years ago by Michael Lawrence 11k • written 5.8 years ago by james.dalgleish ▴ 30

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1.3k

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crash SGSeq TxDb makeTxDbFromBiomart TxFeatures

updated 6.0 years ago by Leonard Goldstein ▴ 150 • written 6.0 years ago by oolongoni ▴ 10

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949

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maketxdbfrombiomart

6.0 years ago floriandeckert ▴ 30

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1.7k

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biomart genomicfeatures maketxdbfrombiomart ensembldb ensDbFromGtf

updated 6.2 years ago by Johannes Rainer ★ 2.0k • written 6.2 years ago by Marie • 0

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1.6k

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biomart maketxdbfrombiomart genomicfeatures

updated 6.6 years ago by James W. MacDonald 63k • written 6.6 years ago by kaur.alasoo ▴ 30

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2.7k

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genomicfeatures biomart maketxdbfrombiomart

updated 6.7 years ago by Thomas Maurel ▴ 790 • written 6.7 years ago by Didi ▴ 10

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982

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biomart maketxdbfrombiomart genomicfeatures

7.1 years ago Ryan C. Thompson 7.8k

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1.9k

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biomart maketxdbfrombiomart granges

updated 7.5 years ago by Vincent J. Carey, Jr. 6.7k • written 7.6 years ago by vinod.acear ▴ 50

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12k

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software error maketxdbfrombiomart

updated 7.8 years ago by Maciej Jończyk • 0 • written 7.9 years ago by luigi.cerulo ▴ 40

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2.4k

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makeTxDbFromBiomart genomicfeatures txdb biomart

updated 7.9 years ago by James W. MacDonald 63k • written 7.9 years ago by vinod.acear ▴ 50

13 results • Page 1 of 1

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Answer: shinyMethyl - saving the file by Guillaume Devailly ▴ 60

You can probably save individual plots by right-clicking on them an save individual images. Maybe printing the page as a pdf will also work…

Answer: Deseq2 calculated log2foldchange not consistent with RPM in IP-small RNA-seq by Michael Love 40k

Did you manually calculate RPMs? Try `fpm(dds)` for comparison, as this also uses DESeq2 median ratio scaling.

Comment: collapseReplicates error after tximeta by Michael Love 40k

A note: I've now changed collapseReplicates() to output a loud warning when it is run on a DESeqDataSet (SummarizedExperiment) with more th…

Comment: Suggested package missing from Development version of Bioconductor by shepherl 3.5k

Have you tried reaching out to the maintainers? If they do not fix the package it will remain unavailable and cause ERROR in your package.…

Answer: Batch effect adjust in model matrix by ATpoint ★ 3.4k

Each sample is a different day, that is called "nested", so there is nothing you can do here. Next time do a better experimental design, he…

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Comment: Batch correction and repeated measures

batch effect : comBat or blocking in limma ?

Batch correction and repeated measures

Comment: Does countsFromAbundance="lengthScaledTPM" produce un-normalized counts?

Comment: Phenotype effect - building a contrast matrix - grouping vs interaction

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