pulseTD: Identification of Transcriptional Dynamics using Pulse Models via 4su-Seq Data and RNA-Seq Data

A tool for analyzing the transcription, processing and degradation rates of genes by 4sU-seq (the Metabolic Label 4-thiouridine) data and RNA-seq (RNA sequencing) data. It can not only recognize the transcriptional dynamic rates at the measurement time points, but also obtain continuous changes in transcriptional dynamics. More importantly, it is able to predict the trend of mRNA (Mature RNA) transcription and expression changes in the future.

Version: 0.1.0
Depends: R (≥ 3.4.0)
Imports: AnnotationDbi, SummarizedExperiment, Rsamtools, Biobase, S4Vectors, methods, parallel, GenomicFeatures, ggplot2, grid, GenomicAlignments
Suggests: knitr, rmarkdown, TxDb.Hsapiens.UCSC.hg19.knownGene
Published: 2019-05-17
Author: XinWang
Maintainer: XinWang <xindd_2014 at 163.com>
License: GPL-2
URL: https://github.com/bioWzz/pulseTD_0.1.0
NeedsCompilation: no
Materials: README
CRAN checks: pulseTD results


Reference manual: pulseTD.pdf
Vignettes: pulseTD
Package source: pulseTD_0.1.0.tar.gz
Windows binaries: r-devel: pulseTD_0.1.0.zip, r-release: pulseTD_0.1.0.zip, r-oldrel: pulseTD_0.1.0.zip
macOS binaries: r-release (arm64): not available, r-release (x86_64): pulseTD_0.1.0.tgz, r-oldrel: pulseTD_0.1.0.tgz


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