imageTCGAutils
Utility functions for working with histopathology images
Bioconductor version: 3.24 · Package version: 1.1.5
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
Utility functions for working with CONCH data, listing remote files. One function assigns HoverNet nuclei to ProvGigaPath tiles with a scale factor to align coordinates. Provides internal utility functions for 'imageFeatureTCGA' and most functions are not meant for end users.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("imageTCGAutils")Details
| Maintainer | Ilaria Billato <ilaria.billato@phd.unipd.it> |
| Author | Marcel Ramos [aut] (ORCID: <https://orcid.org/0000-0002-3242-0582>, affiliation: CUNY Graduate School of Public Health and Health Policy, New York, NY USA), Ilaria Billato [aut, cre] (ORCID: <https://orcid.org/0000-0002-3335-3254>, affiliation: Department of Biology, University of Padova), Eslam Abousamra [ctb] (affiliation: CUNY Graduate School of Public Health and Health Policy, New York, NY USA) |
| License | Artistic-2.0 |
| URL | https://github.com/waldronlab/imageTCGAutils |
| Bug Reports | https://github.com/waldronlab/imageTCGAutils/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Preprocessing, Software, WorkflowStep |
| Package Short Url | https://bioconductor.org/packages/imageTCGAutils/ |
Citation
From within R, enter citation("imageTCGAutils"):
Marcel Ramos, Ilaria Billato. imageTCGAutils: Utility functions for working with histopathology images. doi:10.18129/B9.bioc.imageTCGAutils, R package version 1.1.5, https://bioconductor.org/packages/imageTCGAutils.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | imageTCGAutils_1.1.5.tar.gz |
| Windows binary (x86_64) | imageTCGAutils_1.1.5.zip |
| macOS binary (arm64) | imageTCGAutils_1.1.5.tgz |
| macOS binary (x86_64) | imageTCGAutils_1.1.5.tgz |
Dependencies
Depends: R (>= 4.5.0)
Imports: BiocBaseUtils, data.table, dplyr, grDevices, methods, rlang, S4Vectors, SpatialExperiment, SummarizedExperiment
Suggests: anndataR, BiocStyle, imageFeatureTCGA, ggplot2, knitr, paws, rhdf5, rmarkdown, sfdep, spdep, SpatialFeatureExperiment, tinytest, wk
Reverse dependencies
Suggests Me (1): imageFeatureTCGA