MultiMSOAR

[…] on simulated data and genomic data acquired from the oma orthology database. in particular, ffadj-am performs equally or better when compared to the well-established gene family prediction tool multimsoar., we study the computational complexity of a new family-free model and present algorithms for its solution. with ffadj-am, we propose an appealing alternative to established tools […]

[…] sequence data., a large class of orthology detection tools therefore attempts to explicitly infer gene phylogenies and their reconciliation with species trees, e.g. orthology analysis using mcmc , multimsoar , loft , ensembl compara , and synergy . although this tree-based approach is often considered the most accurate, it suffers from high computational costs and is hence limited in practice […]

[…] values for the subcluster or clades within the cluster are not considered in this decision process. other orthology prediction programs using such a bottom-up approach are, e.g., orthomcl, remark or multimsoar 2.0 , , ., both procedures are very rigid in their orthology prediction, but in theory both can still erroneously assign paralogous sequences into a single ortholog cluster. this is due […]