GMOD

MAKER/tool data

This page stores the data that populates the MAKER wiki page.

| name = MAKER | full_name = | status = mature | dev = active | support = active | type = Genome Annotation | platform = linux, os x, unix | logo = MAKERLogo.png | home = http://www.yandell-lab.org/software/maker.html | about = MAKER is a portable and easy to configure genome annotation pipeline. MAKER allows smaller eukaryotic genome projects and prokaryotic genome projects to annotate their genomes and to create genome databases. MAKER identifies repeats, aligns ESTs and proteins to a genome, produces ab initio gene predictions and automatically synthesizes these data into gene annotations with evidence-based quality values. MAKER is also easily trainable: outputs of preliminary runs can be used to automatically retrain its gene prediction algorithm, producing higher quality gene-models on subsequent runs. MAKER’s inputs are minimal. Its outputs are in GFF3 or FASTA format, and can be directly loaded into Chado, GBrowse, JBrowse or Apollo.

Additional MAKER options/capabilities include:

• Map old annotation sets on to new assemblies.
• Merge multiple legacy annotation sets into a consensus set of annotations.
• Update existing annotations to take new evidence into account.
• Tag pre-existing gene models with evidence alignments and quality control metrics to assist in downstream manual curation.
• Use GFF3 pass-through to include both evidence alignments and predicted gene models from algorithms not natively supported by MAKER.
• MAKER is MPI capable for rapid parallelization across computer clusters.
• You can also easily integrate raw InterProScan results into MAKER, which will identify protein domains, add GO functional categories, and help assign putative gene functions to genome annotations. This data then becomes accessible as part of the GFF3 output and can be loaded into a Chado database, GBrowse, or Apollo.

MAKER comes with sample data for testing purposes. See the /data directory in the download. | screenshot =

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Categories:

• Tool data
• GMOD Components
• MAKER

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• Last updated at 18:29 on 10 September 2013.
• Content is available under a GNU Free Documentation License unless otherwise noted.