AgBase Version 2.0 is a curated, open-source, Web-accessible resource for functional analysis of agricultural plant and animal gene products including gene ontology annotations. Its long-term goal is to serve the needs of the agricultural research communities by facilitating post-genome biology for agriculture researchers and for those researchers primarily using agricultural species as biomedical models. AgBase uses controlled vocabularies developed by the Gene Ontology (GO) Consortium to describe molecular function, biological process, and cellular component for genes and gene products in agricultural species.
GOSSYM is a dynamic, process-level simulation model of cotton growth and yield. GOSSYM essentially is a materials balance model which keeps track of carbon and nitrogen in the plant and water and nitrogen in the soil root zone. GOSSYM predicts the response of the field crop to variations in the environment and to cultural inputs. Specifically, the model responds to weather inputs of daily total solar radiation, maximum and minimum air temperatures, daily total wind run, and rainfall and/or irrigation amount. The model also responds to cultural inputs such as preplant and withinseason applications of nitrogen fertilizer, row spacing and within row plant density as they affect total plant population, and cultivation practices.
GUICS is built on the usability paradigm developed by software designers and has a user-centered design based on results of human–computer interaction interface development lies in human–computer interaction studies.
A set of FORTRAN programs to implement a multiple-trait Gibbs sampling algorithm for (co)variance component inference in animal models (MTGSAM).
A set of programs for estimation of genetic (co)variances using multiple-trait derivative-free restricted maximum likelihood.
The genosim package simulates genotypes, breeding values, and phenotypes; simulates DNA sequence read depth (numbers of A and B alleles); and resolves SNP conflicts between parent and offspring genotypes.