peco
Predict cell cycle phase in a continuum from single-cell RNA-seq data
Science Score: 39.0%
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Low similarity (10.9%) to scientific vocabulary
Keywords
Repository
Predict cell cycle phase in a continuum from single-cell RNA-seq data
Basic Info
- Host: GitHub
- Owner: jhsiao999
- License: gpl-3.0
- Language: R
- Default Branch: master
- Homepage: https://jhsiao999.github.io/peco/
- Size: 74 MB
Statistics
- Stars: 12
- Watchers: 3
- Forks: 4
- Open Issues: 5
- Releases: 13
Topics
Metadata Files
README.md
peco
peco is an R package for PrEdicting Cell cycle prOgression in a continuum using scRNA-seq data. peco provides functions to build a training data set and predict cell cycle on a continuum.
Installation
To install and load the package, run:
r
install.packages("devtools")
devtools::install_github("jhsiao999/peco")
library(peco)
For for a detailed illustration of peco, see the vignette.
Contact
Please contact Joyce Hsiao at joyce.hsiao1@gmail.com for questions on the package or the methods.
How to cite
Hsiao, C. J., Tung, P., Blischak, J. D., Burnett, J., Dey, K. K., Barr, A. K., Stephens, M., and Gilad, Y. (2020). Characterizing and inferring quantitative cell cycle phase in single-cell RNA-seq data analysis. Genome Biology, 30(4): 611-621, doi:10.1101/gr.247759.11
License
Copyright (c) 2019-2020, Joyce Hsiao.
All source code and software in this repository are made available under the terms of the GNU General Public License. See file LICENSE for the full text of the license.
Owner
- Name: Chiaowen Joyce Hsiao
- Login: jhsiao999
- Kind: user
- Location: United States
- Company: University of Chicago
- Website: jhsiao999.github.io
- Repositories: 89
- Profile: https://github.com/jhsiao999
GitHub Events
Total
Last Year
Committers
Last synced: 11 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| jhsiao999 | j****1@g****m | 102 |
| Peter Carbonetto | p****o@g****m | 50 |
| John Blischak | j****k@g****m | 24 |
| Nitesh Turaga | n****a@g****m | 2 |
Issues and Pull Requests
Last synced: 11 months ago
All Time
- Total issues: 11
- Total pull requests: 41
- Average time to close issues: about 2 months
- Average time to close pull requests: 5 days
- Total issue authors: 6
- Total pull request authors: 3
- Average comments per issue: 1.82
- Average comments per pull request: 0.24
- Merged pull requests: 39
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 0
- Pull requests: 0
- Average time to close issues: N/A
- Average time to close pull requests: N/A
- Issue authors: 0
- Pull request authors: 0
- Average comments per issue: 0
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- jhsiao999 (4)
- kasperdanielhansen (3)
- snajder-r (1)
- Yolanda-HT (1)
- kennethabarr (1)
- blood-abc (1)
Pull Request Authors
- jhsiao999 (25)
- jdblischak (7)
- pcarbo (1)
Top Labels
Issue Labels
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Packages
- Total packages: 1
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Total downloads:
- bioconductor 8,296 total
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 5
- Total maintainers: 1
bioconductor.org: peco
A Supervised Approach for **P**r**e**dicting **c**ell Cycle Pr**o**gression using scRNA-seq data
- Homepage: https://github.com/jhsiao999/peco
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/peco/inst/doc/peco.pdf
- License: GPL (>= 3)
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Latest release: 1.20.0
published about 1 year ago