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DESCRIPTION

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Package: proActiv
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Title: Estimate Promoter Activity from RNA-Seq data
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Version: 0.99.1
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Version: 0.99.2
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Authors@R: c(
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person(given = "Deniz",
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family = "Demircioglu",
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family = "Lee",
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role = c("cre"),
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email = "joseph.lee@u.nus.edu"))
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Description: Estimate promoter activity using RNA-Seq data.
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This package uses BAM files or junction files from Tophat2
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or STAR and estimates promoter activity. The promoters of each
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gene can be identified by providing a txdb object for the input
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annotation version.
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Description: Most human genes have multiple promoters that control the
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expression of different isoforms. The use of these alternative promoters
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enables the regulation of isoform expression pre-transcriptionally.
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Alternative promoters have been found to be important in a wide number of cell
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types and diseases. proActiv is an R package that enables the analysis of
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promoters from RNA-seq data. proActiv uses aligned reads as input, and
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generates counts and normalized promoter activity estimates for each annotated
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promoter. In particular, proActiv accepts junction files from TopHat2 or STAR
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or BAM files as inputs. These estimates can then be used to identify which
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promoter is active, which promoter is inactive, and which promoters change
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their activity across conditions.
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License: MIT + file LICENSE
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Encoding: UTF-8
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LazyData: true

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