Permalink
Cannot retrieve contributors at this time
Name already in use
A tag already exists with the provided branch name. Many Git commands accept both tag and branch names, so creating this branch may cause unexpected behavior. Are you sure you want to create this branch?
admire/docs/index.md
Go to fileThis commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
47 lines (31 sloc)
1.95 KB
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Welcome to the ADMIRE documentation | |
| ================================================ | |
| ADMIRE is a semi-automatic analysis pipeline and visualization tool for Infinium HumanMethylation450K and Infinium MethylationEpic assays. | |
| Use ADMIRE online: [bioinformatics.mpi-bn.mpg.de](https://bioinformatics.mpi-bn.mpg.de) | |
| Overview and Objective | |
| ------------ | |
| DNA methylation at cytosine nucleotides constitutes epigenetic gene regulation impacting cellular development and the stage of a disease. Besides whole genome bisulfit sequencing, Illumina HumanMethylation450K Assays represent a versatile and cost-effective tool to investigate changes of methylation patterns at CpG sites. | |
| ADMIRE was developed as an open source, semi-automatic analysis pipeline and visualization tool for Illumina HumanMethylation450K Assays. | |
| Features | |
| ------------ | |
| - Automatic filtering and normalization | |
| - Statistical testing and multiple testing correction | |
| - Supports arbitrary number of samples and sample groups | |
| - Differential methylation analysis on pre-calculated and individual genomic regions | |
| - Provides ready-to-plug-in files for genome browsers (like IGV) | |
| - Provides publication-ready figures for the most differentially methylated regions | |
| - Performs gene set enrichment analysis on predefined and individual gene sets | |
| How to cite? | |
| ------------ | |
| Please cite the paper describing ADMIRE when using the web service or command line version in your research: | |
| Preussner J, Bayer J, Kuenne C and Looso M. ADMIRE: Analysis and visualization of differential methylation in genomic regions using the Infinium HumanMethylation450 Assay. *Epigenetics & Chromatin* (**2015**). | |
| Contribute | |
| ---------- | |
| - Issue Tracker: https://github.molgen.mpg.de/loosolab/admire/issues | |
| - Source Code: https://github.molgen.mpg.de/loosolab/admire | |
| Support | |
| ------- | |
| If you are having issues, please feel free to send an e-mail to Jens Preußner (jens.preussner@mpi-bn.mpg.de). | |
| License | |
| ------- | |
| The project is licensed under the MIT license. |