pulseTD
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 rate 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. In terms of performance, 'pulseTD' has good robustness and accuracy.
Science Score: 10.0%
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○CITATION.cff file
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○DOI references
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○Academic publication links
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✓Committers with academic emails
1 of 2 committers (50.0%) from academic institutions -
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○Scientific vocabulary similarity
Low similarity (5.7%) to scientific vocabulary
Repository
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 rate 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. In terms of performance, 'pulseTD' has good robustness and accuracy.
Basic Info
- Host: GitHub
- Owner: bioWzz
- Language: R
- Default Branch: master
- Size: 4.15 MB
Statistics
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
Package: pulseTD
Type: Package
Author: XinWang
Maintainer: The package maintainer
Title: Identification of Transcriptional Dynamics using Pulse Models via 4su-Seq Data and RNA-Seq Data
Version: 0.1.0
Date: 2019-5-5
Description: 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 rate 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. In terms of performance, 'pulseTD' has good robustness and accuracy.
License: GPL-2
Encoding: UTF-8
Depends: R (>= 3.4.0)
Imports: AnnotationDbi,SummarizedExperiment,Rsamtools,Biobase,S4Vectors,methods,parallel,GenomicFeatures, ggplot2, grid, GenomicAlignments
URL: https://github.com/bioWzz/pulseTD_0.1.0
RoxygenNote: 6.1.1
Suggests: knitr, rmarkdown, TxDb.Hsapiens.UCSC.hg19.knownGene
VignetteBuilder: knitr
Owner
- Name: wangzz
- Login: bioWzz
- Kind: user
- Repositories: 3
- Profile: https://github.com/bioWzz
GitHub Events
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Committers
Last synced: over 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| wangzz | w****z@e****n | 2 |
| xindd | x****4@q****m | 2 |
Committer Domains (Top 20 + Academic)
Packages
- Total packages: 1
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Total downloads:
- cran 121 last-month
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 1
- Total maintainers: 1
cran.r-project.org: pulseTD
Identification of Transcriptional Dynamics using Pulse Models via 4su-Seq Data and RNA-Seq Data
- Homepage: https://github.com/bioWzz/pulseTD_0.1.0
- Documentation: http://cran.r-project.org/web/packages/pulseTD/pulseTD.pdf
- License: GPL-2
- Status: removed
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Latest release: 0.1.0
published about 7 years ago
Rankings
Maintainers (1)
Dependencies
- R >= 3.4.0 depends
- AnnotationDbi * imports
- Biobase * imports
- GenomicAlignments * imports
- GenomicFeatures * imports
- Rsamtools * imports
- S4Vectors * imports
- SummarizedExperiment * imports
- ggplot2 * imports
- grid * imports
- methods * imports
- parallel * imports
- TxDb.Hsapiens.UCSC.hg19.knownGene * suggests
- knitr * suggests
- rmarkdown * suggests