islify
This is the development version of islify; for the stable release version, see islify.
Automatic scoring and classification of cell-based assay images
Bioconductor version: Development (3.24)
This software is meant to be used for classification of images of cell-based assays for neuronal surface autoantibody detection or similar techniques. It takes imaging files as input and creates a composite score from these, that for example can be used to classify samples as negative or positive for a certain antibody-specificity. The reason for its name is that I during its creation have thought about the individual picture as an archielago where we with different filters control the water level as well as ground characteristica, thereby finding islands of interest.
Author: Jakob Theorell [aut, cre, fnd] (ORCID: 
, Funding provided by the Swedish Wenner-Gren Foundations)
Maintainer: Jakob Theorell <jakob.theorell at ki.se>
citation("islify")):Jakob Theorell. islify: Automatic scoring and classification of cell-based assay images. doi:10.18129/B9.bioc.islify, R package version 1.5.0, https://bioconductor.org/packages/islify.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("islify")For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("islify")| Typical usage of islify | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | BiomedicalInformatics, CellBasedAssays, Classification, FeatureExtraction, Pathways, Software, Visualization |
| Version | 1.5.0 |
| In Bioconductor since | BioC 3.21 (R-4.5) (1.5 years) |
| License | GPL-3 |
| Depends | R (>= 4.5) |
| Imports | autothresholdr (>= 1.4.2), Matrix (>= 1.6.1), RBioFormats (>= 1.0.0), tiff (>= 0.1.12), png (>= 0.1.8), dbscan (>= 1.1.12), abind (>= 1.4.8), methods (>= 4.3.3), stats (>= 4.3.3) |
| System Requirements | |
| URL | https://github.com/Bioconductor/islify |
| Bug Reports | https://github.com/Bioconductor/islify/issues |
See More
| Suggests | knitr, rmarkdown, testthat, BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | islify_1.5.0.tar.gz |
| Windows Binary (x86_64) | islify_1.5.0.zip |
| macOS Binary (big-sur-x86_64) | islify_1.5.0.tgz |
| macOS Binary (sonoma-arm64) | islify_1.5.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/islify |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/islify |
| Package Short Url | https://bioconductor.org/packages/islify/ |
| Package Downloads Report | Download Stats |