Package: occugene 1.73.0
Oliver Will
occugene: Functions for Multinomial Occupancy Distribution
Statistical tools for building random mutagenesis libraries for prokaryotes. The package has functions for handling the occupancy distribution for a multinomial and for estimating the number of essential genes in random transposon mutagenesis libraries.
Authors:
occugene_1.73.0.tar.gz
occugene_1.73.0.zip(r-4.7)occugene_1.73.0.zip(r-4.6)occugene_1.73.0.zip(r-4.5)
occugene_1.73.0.tgz(r-4.6-any)occugene_1.73.0.tgz(r-4.5-any)
occugene_1.73.0.tar.gz(r-4.7-any)occugene_1.73.0.tar.gz(r-4.6-any)
occugene_1.73.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
occugene/json (API)
| # Install 'occugene' in R: |
| install.packages('occugene', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- sampleAnnotation - Annotation for a Hypothetical Prokayote
- sampleInsertions - Insertions for a Hypothetical Clonal Library
On BioConductor:occugene-1.73.0(bioc 3.24)occugene-1.72.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:07cdca33f0. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 123 | ||
| linux-devel-x86_64 | NOTE | 159 | ||
| source / vignettes | OK | 128 | ||
| linux-release-x86_64 | NOTE | 145 | ||
| macos-release-arm64 | NOTE | 78 | ||
| macos-oldrel-arm64 | NOTE | 77 | ||
| windows-devel | NOTE | 61 | ||
| windows-release | NOTE | 87 | ||
| windows-oldrel | NOTE | 69 | ||
| wasm-release | OK | 82 |
Exports:checkFormatdelta0eMultetDeltafCumulfFitoccup2NegenesunbiasB0unbiasDelta0varMult
Dependencies:
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Histogram Breakpoints | binHist |
| Insert Locations | binInsert |
| Insert Locations Quickly | binInsertHist |
| Checks the Format of Annotation and Insertions | checkFormat |
| Number of New Knockouts | delta0 |
| Expected Value of the Occupancy Distribution | eMult |
| Number of New ORF Knockouts | etDelta |
| Parametric Function for the Cumulative Occupancy Distribution | fCumul |
| Parametric Fit for the Cumulative Occupancy Distribution | fFit |
| Loads Annotation File | loadAnnotation |
| Load Genome Annotation File | loadInsertions |
| Convert Occupancy Format to Negenes | occup2Negenes |
| Annotation for a Hypothetical Prokayote | sampleAnnotation |
| Insertions for a Hypothetical Clonal Library | sampleInsertions |
| Unbiased Estimator of the Number of Non-essential ORFs | unbiasB0 |
| Unbiased Number of New Knockouts | unbiasDelta0 |
| Variance of the Occupancy Distribution | varMult |