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In other methods this position can only be inferred by using additional secondary structure information to reduce alignment errors.

In most studies differences in CXCR4 conformation can be inferred by using monoclonal antibodies to CXCR4.

Instead of BASE, the activity profiles for PWMs can also be inferred by using other methods such as the REDUCE [ 60], network component analysis [ 61], MA-Networker algorithm [ 62], and partial least squares regression method [ 63].

However, when the two SNVs occur close enough that the distance is less than the library insert size, haplotypes can be inferred by using the reads or read pairs spanning multiple SNVs (Fig.  1, A1 and B1).

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For each gene, phylogenetic trees were inferred by using maximum-likelihood and Bayesian inference methods.

The rheological structures of the lowlands (North Pole) and highlands (Solis Planum) were inferred by using the temperature profiles of each region, as calculated above.

The evolutionary history was inferred by using the Maximum Likelihood method with the default options of MEGA5, based on the Tamura-Nei model and 1000 bootstrap replications.

The phylogenetic tree was inferred by using the Neighbour-Joining method with the Maximum Composite Likelihood model in MEGA4 program with bootstrap values based on 1000 replications.

The parameters of the MRF model are learned from the training data and then the most likely color distribution for each pixel in the given color-depleted image is inferred by using belief propagation (BP).

Phylogenetic trees were inferred by using maximum-likelihood (ML) and Bayesian methods.

Phylogenetic relationships were inferred by using PAUP version 4b10 (15 ).

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