Package: dinamic 1.0.1
dinamic: A Method to Analyze Recurrent DNA Copy Number Aberrations in Tumors
In tumor tissue, underlying genomic instability can lead to DNA copy number alterations, e.g., copy number gains or losses. Sporadic copy number alterations occur randomly throughout the genome, whereas recurrent alterations are observed in the same genomic region across multiple independent samples, perhaps because they provide a selective growth advantage. This package implements the DiNAMIC procedure for assessing the statistical significance of recurrent DNA copy number aberrations (Bioinformatics (2011) 27(5) 678 - 685).
Authors:
dinamic_1.0.1.tar.gz
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dinamic.pdf |dinamic.html✨
dinamic/json (API)
NEWS
| # Install 'dinamic' in R: |
| install.packages('dinamic', repos = c('https://vonnwalter23.r-universe.dev', 'https://cloud.r-project.org')) |
- annot.file - Cytoband annotation data frame
- wilms.data - DNA copy number data from Wilms' tumor
- wilms.markers - Array comparative genomic hybridization marker data
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 8 months agofrom:29941adcea. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 11 2024 |
| R-4.5-win | OK | Nov 11 2024 |
| R-4.5-linux | OK | Nov 11 2024 |
| R-4.4-win | OK | Nov 11 2024 |
| R-4.4-mac | OK | Nov 11 2024 |
| R-4.3-win | OK | Nov 11 2024 |
| R-4.3-mac | OK | Nov 11 2024 |
Exports:detailedLookmakeCytobandpeelingquickLookrecodeBinary
Dependencies:
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Cytoband annotation data frame | annot.file |
| Assessing the Significance of Recurrent DNA Copy Number Aberrations | detailedLook |
| Find the chromosome arm for each marker | makeCytoband |
| Apply the peeling procedure at a given marker | peeling |
| Find DiNAMIC's null distribution | quickLook |
| Recode binary vectors | recodeBinary |
| DNA copy number data from Wilms' tumor | wilms.data |
| Array comparative genomic hybridization marker data | wilms.markers |
