Evaluation of BLAST-based edge-weighting metrics used for homology inference with the Markov Clustering algorithm

A fast hierarchical clustering algorithm for large-scale protein sequence data sets

(2014) Sándor M. Szilágyi et al.   COMPUTERS IN BIOLOGY AND MEDICINE

The large-scale blast score ratio (LS-BSR) pipeline: a method to rapidly compare genetic content between bacterial genomes

(2014) Jason W. Sahl et al.   PeerJ

orthAgogue: an agile tool for the rapid prediction of orthology relations

(2013) O. K. Ekseth et al.   BIOINFORMATICS

Improving the quality of protein similarity network clustering algorithms using the network edge weight distribution

(2010) Leonard Apeltsin et al.   BIOINFORMATICS

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS