期刊
BIOINFORMATICS
卷 33, 期 14, 页码 2224-2225出版社
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btx177
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资金
- NSF [1444478, 1419501]
- Biomedical Informatics Research Training at Yale [T15LM 007056]
- National Institutes of Health [RR19895, RR029676-01]
- Direct For Biological Sciences
- Division Of Integrative Organismal Systems [1444478] Funding Source: National Science Foundation
- Division Of Integrative Organismal Systems
- Direct For Biological Sciences [0965420] Funding Source: National Science Foundation
Motivation: Genotyping by sequencing (GBS) generates datasets that are challenging to handle by current genetic mapping software with graphical interface. Geneticists need new user-friendly computer programs that can analyze GBS data on desktop computers. This requires improvements in computation efficiency, both in terms of speed and use of random-access memory (RAM). Results: MapDisto v. 2.0 is a user-friendly computer program for construction of genetic linkage maps. It includes several new major features: (i) handling of very large genotyping datasets like the ones generated by GBS; (ii) direct importation and conversion of Variant Call Format (VCF) files; (iii) detection of linkage, i.e. construction of linkage groups in case of segregation distortion; (iv) data imputation on VCF files using a new approach, called LB-Impute. Features i to iv operate through inclusion of new Java modules that are used transparently by MapDisto; (v) QTL detection via a new R./qtl graphical interface.
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