MAKER-P: A Tool Kit for the Rapid Creation, Management, and Quality Control of Plant Genome Annotations1[W][OPEN]
نویسندگان
چکیده
Eccles Institute of Human Genetics (M.S.C., M.L., M.Y.) and Department of Biomedical Informatics (M.L.), University of Utah, Salt Lake City, Utah 84112; Ontario Institute for Cancer Research, Toronto, Ontario, Canada M5G 1L7 (C.H.); Genetics Program (G.D.M., S.-H.S., N.J.), Department of Plant Biology (D.E.H., S.-H.S., K.L.C.), Department of Computer Science and Engineering (R.A., Y.S.), and Department of Horticulture (J.C.S., N.J.), Michigan State University, East Lansing, Michigan 48824; University of Texas, Texas Advanced Computing Center, Austin, Texas 78758 (D.J.); United States Department of Agriculture-Agricultural Research Service Corn Insects and Crop Genetics Research Unit and Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, Iowa 50011 (C.J.L.); iPlant Collaborative, Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724 (D.W.); and United States Department of Agriculture-Agricultural Research Service North Atlantic Area, Robert W. Holley Center for Agriculture and Health, Ithaca, New York 14853 (D.W.)
منابع مشابه
Breakthrough Technologies MAKER-P: A Tool Kit for the Rapid Creation, Management, and Quality Control of Plant Genome Annotations1[W][OPEN]
Eccles Institute of Human Genetics (M.S.C., M.L., M.Y.) and Department of Biomedical Informatics (M.L.), University of Utah, Salt Lake City, Utah 84112; Ontario Institute for Cancer Research, Toronto, Ontario, Canada M5G 1L7 (C.H.); Genetics Program (G.D.M., S.-H.S., N.J.), Department of Plant Biology (D.E.H., S.-H.S., K.L.C.), Department of Computer Science and Engineering (R.A., Y.S.), and De...
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We have optimized and extended the widely used annotation engine MAKER in order to better support plant genome annotation efforts. New features include better parallelization for large repeat-rich plant genomes, noncoding RNA annotation capabilities, and support for pseudogene identification. We have benchmarked the resulting software tool kit, MAKER-P, using the Arabidopsis (Arabidopsis thalia...
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The large size and relative complexity of many plant genomes make creation, quality control, and dissemination of high-quality gene structure annotations challenging. In response, we have developed MAKER-P, a fast and easy-to-use genome annotation engine for plants. Here, we report the use of MAKER-P to update and revise the maize (Zea mays) B73 RefGen_v3 annotation build (5b+) in less than 3 h...
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