Package: AssessORF 1.25.0
Deepank Korandla
AssessORF: Assess Gene Predictions Using Proteomics and Evolutionary Conservation
In order to assess the quality of a set of predicted genes for a genome, evidence must first be mapped to that genome. Next, each gene must be categorized based on how strong the evidence is for or against that gene. The AssessORF package provides the functions and class structures necessary for accomplishing those tasks, using proteomic hits and evolutionarily conserved start codons as the forms of evidence.
Authors:
AssessORF_1.25.0.tar.gz
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AssessORF.pdf |AssessORF.html✨
AssessORF/json (API)
NEWS
| # Install 'AssessORF' in R: |
| install.packages('AssessORF', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:AssessORF-1.25.0(bioc 3.21)AssessORF-1.24.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
comparativegenomicsgenepredictiongenomeannotationgeneticsproteomicsqualitycontrolvisualization
Last updated 5 months agofrom:504f57721f. Checks:3 OK, 6 NOTE. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Mar 19 2025 |
| R-4.5-win | NOTE | Mar 19 2025 |
| R-4.5-mac | NOTE | Mar 19 2025 |
| R-4.5-linux | NOTE | Mar 19 2025 |
| R-4.4-win | NOTE | Mar 19 2025 |
| R-4.4-mac | NOTE | Mar 19 2025 |
| R-4.4-linux | NOTE | Mar 19 2025 |
| R-4.3-win | OK | Mar 19 2025 |
| R-4.3-mac | OK | Mar 19 2025 |
Exports:AssessGenesCompareAssessmentResultsMapAssessmentDataScoreAssessmentResults
Dependencies:askpassBiocGenericsBiostringscrayoncurlDBIDECIPHERgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangeshttrIRangesjsonlitemimeopensslR6S4VectorssysUCSC.utilsXVector
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Tabulate the Category Assignments for Assessment Results Objects | as.matrix.Assessment |
| Assess Genes | AssessGenes |
| Assessment objects | Assessment-class |
| Compare Assessment Results | CompareAssessmentResults |
| Map Evidence to a Genome | MapAssessmentData |
| Plot Genes by Category and Length | mosaicplot.Assessment |
| Plot Assessment Objects | plot.Assessment |
| Print Assessment Objects | print.Assessment |
| Score Gene Assessment Results | ScoreAssessmentResults |