https://github.com/fboulnois/made
Microarray Analysis of Differential Expression
https://github.com/fboulnois/made
affymetrix differential-expression genome illumina microarray r
Last synced: 6 months ago
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Microarray Analysis of Differential Expression
- Host: GitHub
- URL: https://github.com/fboulnois/made
- Owner: fboulnois
- Created: 2016-04-06T21:41:15.000Z (over 9 years ago)
- Default Branch: master
- Last Pushed: 2016-04-07T01:28:36.000Z (over 9 years ago)
- Last Synced: 2025-02-14T11:52:08.465Z (8 months ago)
- Topics: affymetrix, differential-expression, genome, illumina, microarray, r
- Language: R
- Homepage:
- Size: 83 KB
- Stars: 0
- Watchers: 0
- Forks: 0
- Open Issues: 0
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Metadata Files:
- Readme: README.md
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README
# made: Microarray Analysis of Differential Expression
This package has completed development and is being submitted to Bioconductor.
In the interim, download the latest version from the
[releases](https://github.com/fboulnois/made/releases) tab and extract the zip
file to a folder.
**Note:** Before starting the installation of `made`, you may need to install
`libxml2-dev` or equivalent from the terminal if using a Linux distribution:
- Type `sudo apt-get install libxml2-dev` in Debian or Ubuntu
- Type `yum install libxml2-devel` in Fedora or Red Hat Enterprise Linux
- Type `sudo zypper install libxml2-devel` in OpenSUSE
Then, in R:
1. Use `setwd()` to set the working directory to that folder
2. Run `source("madeinstall.R")` to automatically install the required
dependencies from CRAN and Bioconductor.
If instead you are using RStudio then you can open `madeinstall.R` and source it
directly.
**Note:** ReactomePA and GOstats are large dependencies and may take a while to
download. Annotation packages must also be downloaded to support a particular
microarray platform.