furrowSeg
This is the released version of furrowSeg; for the devel version, see furrowSeg.
Furrow Segmentation
Bioconductor version: Release (3.23)
Image feature data and analysis codes for the Guglielmi, Barry et al. paper describing the application of an optogenetics tools to disrupt Drosophila embryo furrowing.
Author: Joseph Barry
Maintainer: Joseph Barry <joseph.barry at embl.de>
citation("furrowSeg")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("furrowSeg")
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("furrowSeg")| Supplementary Methods - Automatic generation of paper figures | R Script | |
| Supplementary Methods - Example furrow segmentation | R Script | |
| Reference Manual |
Details
| biocViews | Drosophila_melanogaster_Data, ExperimentData, ReproducibleResearch, Tissue |
| Version | 1.39.0 |
| License | Artistic-2.0 |
| Depends | R (>= 3.3), EBImage |
| Imports | abind, dplyr, locfit, tiff |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, ggplot2, knitr |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | furrowSeg_1.39.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/furrowSeg |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/furrowSeg |
| Package Short Url | https://bioconductor.org/packages/furrowSeg/ |
| Package Downloads Report | Download Stats |