Sequencing diverse plant species of evolutionary, agricultural, and medicinal interest is becoming routine for even small groups - genome annotation and analysis is much less so. The MAKER-P pipeline is designed to make the annotation of novel plant genomes tractable for small groups with limited bioinformatics experience and resources, and faster and more transparent for large groups with more experience and resources. The MAKER-P pipeline generates species-specific repeat libraries, as well as structural annotations of protein coding genes, non-coding RNAs, and pseudogenes.
- MAKER-P main engine (integrated into MAKER versions 2.29+, which incorporates a new, more scalable parallelization scheme for large genomes and for deployment within the iPlant Cyberinfrastructure at TACC. NSF IOS-1126998, Developing an effective, portable annotation engine for plant genomes funds its development).
- Custom repeat library protocol
- Pseudogene Identification Protocol
- Tools for Non-coding RNA prediction
Support for MAKER is provided by a wiki, a collection of archived posts to the mailing list,
and the mailing list itself. Please check for answers to your questions using those sources,
in that order.
Please join the mailing list and become a member of the MAKER community.
Check out this instructional MAKER wiki.
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