# Xander - The Manual

## Xander - The Manual

- [Introduction](https://jfq3.gitbook.io/rdp-tutorials/master.md)
- [Installing RDP Tools](https://jfq3.gitbook.io/rdp-tutorials/install_rdptools.md)
- [Running Xander](https://jfq3.gitbook.io/rdp-tutorials/run_xander.md)
- [Test a Local Xander Installation](https://jfq3.gitbook.io/rdp-tutorials/run_xander/xander_local_example.md)
- [Interactive Xander Example on MSU's HPCC](https://jfq3.gitbook.io/rdp-tutorials/run_xander/xander_hpcc_example.md)
- [Submitting Xander Jobs to MSU's HPCC](https://jfq3.gitbook.io/rdp-tutorials/run_xander/submitting_xander_jobs.md)
- [Choosing Xander Parameters](https://jfq3.gitbook.io/rdp-tutorials/xander_choosing_parameters.md)
- [Xander Results Explained](https://jfq3.gitbook.io/rdp-tutorials/xander_results.md)
- [Adding Gene Models to Xander](https://jfq3.gitbook.io/rdp-tutorials/add_xander_hmms.md)
- [Xander Results for Multiple Samples](https://jfq3.gitbook.io/rdp-tutorials/xander_multiple_samples.md)