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biocLite("HD2013SGI")
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HD2013SGI
Mapping genetic interactions in human cancer cells with RNAi and multiparametric phenotyping
Bioconductor version: 3.0
This package contains the experimental data and a complete executable transcript (vignette) of the analysis of the HCT116 genetic interaction matrix presented in the paper "Mapping genetic interactions in human cancer cells with RNAi and multiparametric phenotyping" by C. Laufer, B. Fischer, M. Billmann, W. Huber, M. Boutros; Nature Methods (2013) 10:427-31. doi: 10.1038/nmeth.2436.
Author: Bernd Fischer
Maintainer: Bernd Fischer <bernd.fischer at embl.de>
Citation (from within R,
enter citation("HD2013SGI")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("HD2013SGI")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("HD2013SGI")
| R Script | HD2013SGI | |
| Reference Manual |
Details
| biocViews | Cancer, CellBasedAssays, CellBiology, Colon, ExperimentData, NetworkAnalysis, QualityControl |
| Version | 1.5.1 |
| License | Artistic-2.0 |
| Depends | R (>= 2.10.0), RColorBrewer, gplots, geneplotter, splots, limma, vcd, LSD, EBImage |
| Imports | |
| LinkingTo | |
| Suggests | BiocStyle |
| SystemRequirements | GNU make |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | HD2013SGI_1.5.1.tar.gz |
| Windows Binary | HD2013SGI_1.5.1.zip |
| Mac OS X 10.6 (Snow Leopard) | HD2013SGI_1.5.1.tgz |
| Mac OS X 10.9 (Mavericks) | HD2013SGI_1.5.1.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
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