Sentence examples for using the mcl method from inspiring English sources

Multigene families were identified using the MCL method [ 116].

Protein-Protein Interactions (PPIs) for a particular species e.g. yeast, were combined into a Protein Interaction Network (PIN) and clustered using the MCL algorithm (see methods).

We combined BLAST-based selection of clusters using the MCL algorithm with further automated phylogenetic screening of families and paralogs (see Materials and Methods).

The MCL method was removed in GPS 2.0 due to its poor efficiency [24].

Up to 1,889 protein families (containing at least two genes in all selected species) were identified from E. pusillum and 14 other fungi using Markov cluster (MCL) method.

Continue using the French method.

Consider using the burger method.

As for DAMAlignMCL and AlignMCL, both methods use MCL method to partition network before or after aligning two network.

Hierarchal clustering among genomes using presence/absence of MCL gene clusters was performed using the complete linkage method and binary distances as implemented in the R package pvclust (Suzuki and Shimodaira 2006).

The evolutionary history was inferred using the maximum likelihood method based on the Tamura Nei model with 1,000 bootstrap iterations, and a combination of maximum parsimony and MIONJ method with MCL distance matrix was used (MEGA 5.05).

Finally, modules, or sets of closely linked genes, were identified in each of the networks using the link community method [ 51] which circumscribes edges into communities using the 'linkcomm' binary version 1.0-4 in R [ 57] or MCL modules using the 'mcl' binary version 11-294 (http://micans.org/mcl/).org/mcl/