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Other approaches compare these trees directly [ 8] and our own earlier program Codep [ 13] compares the multiple sequence alignments to measure the coevolution signal.
One simple way of assessing the dependence of codon sites in a set of alignments is to measure the relationship between the PhyloCSF log-likelihood ratio, Λ, and the number of sites in each alignment, n.
MAQ is another program for ungapped alignment with probability models to measure alignment quality [ 1].
MN once again carried out the manual word alignment in order to measure the intra-rater reliability.
Instead of focusing on detecting alignment, we propose to measure the functional relation between P. falciparum proteins and the annotated proteins in another species by aligning the neighborhood subnetworks of the two proteins.
The local alignment score we used to measure promoter conservation can be roughly considered as a combination of identity and alignment length.
Fig. 3 Weightbearing ankle radiographs showing the radiographic parameters used to measure alignment in ankles with varus ankle osteoarthritis.
Each linkage map marker's location in alignment result was retrieved to measure accuracy of the genetic map.
Because limb alignment is relatively easy to measure in vivo, its relation with knee OA has been examined in a number of studies.
A score value was generated for each alignment and a P value statistic was used to measure quality of alignment.
A method to measure the alignment process in He gas recently developed by Uyeda et al. (2001) is shown schematically in Fig. 1.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com