Edit Tool data: MAKER
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|Available on platform||linux +, os x + and unix +|
|Has URL||http://www.yandell-lab.org/software/maker.html +, http://yandell.topaz.genetics.utah.edu/cgi-bin/maker_license.cgi +, http://derringer.genetics.utah.edu/cgi-bin/MWAS/maker.cgi +, http://hymenopteragenome.org/ant_genomes/ +, http://www.yandell-lab.org/software/maker-p.html + and https://www.e-biogenouest.org/resources/48 +|
|Has description||online version of the MAKER tool +, The ant genomes were annotated using MAKER. +, MAKER is an easy-to-configure, portable ge … MAKER is an easy-to-configure, portable 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, WebApollo or Apollo.
For those annotating novel plant genomes, the MAKER-P pipeline is designed to make the annotation 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. The MAKER-P website has more information on the additional protocols for plant genome annotation.
Additional MAKER options and capabilities include:
|Has development status||active +|
|Has input format||GFF3 + and FASTA +|
|Has licence||GNU GPL (for academics) +, Artistic License 2.0 (for academics) + and custom license for commercial usage +|
|Has logo||MAKERLogo.png +|
|Has output format||GFF3 + and FASTA +|
|Has software maturity status||mature +|
|Has support status||active +|
|Has title||MAKER Web Annotation Server +, Ant Genomes Portal +, MAKER-P + and A beginner's guide to eukaryotic genome annotation +|
|Has topic||MAKER +|
|Is open source||Caveats apply +|
|Link type||download +, source code +, website +, public server +, publication + and other +|
|Release date||2008 +|
|Tool functionality or classification||Genome Annotation +|
|Written in language||Perl +|
|Has subobjectThis property is a special property in this wiki.||MAKER#http://www.yandell-lab.org/software/maker.html +, MAKER#http://yandell.topaz.genetics.utah.edu/cgi-bin/maker_license.cgi +, MAKER#http://derringer.genetics.utah.edu/cgi-bin/MWAS/maker.cgi +, MAKER#http://hymenopteragenome.org/ant_genomes/ +, MAKER#http://www.yandell-lab.org/software/maker-p.html + and MAKER#https://www.e-biogenouest.org/resources/48 +|