Sentence examples for by using default parameter from inspiring English sources

Homology modelling of PschSOD was prepared by using default parameter at SWISS model workspace (http://swissmodel.expasy.org/) [ 53, 54].

The secondary structures were predicted by using default parameters.

This refined protein structure was used for receptor grid generation by using default parameters.

The PCR product Sanger sequences were aligned to the reference in SeqMan Pro software (DNAStar) for validation by using default parameters.

Annotation of all sequences was performed by using default parameters on the two ranges of length previously described.

By using default parameters, we did not fine-tune all possible options available in the individual software applications.

SNPs and indels were used for further analysis if they passed the Cortex population filter/site classifier by using default parameters.

The amplicons were designed with the program Primer Express 2.0 (Applied Biosystems, Foster City, CA, USA) by using default parameters such that they spanned exon boundaries.

The putative target sites were predicted by the PLEXY program [ 43] for C/D box snoRNAs and by the RNAsnoop program [ 44] for H/ACA box snoRNAs by using default parameters.

Four sets of BLAST outcome (walnut vs. grape, grape vs. walnut, walnut vs. walnut, and grape vs. grape) at cutoff P < 1E-5 and -m8 output option were merged as alignment input, GFF file in simple version for both grape and walnut coding genes were merged as coordination input, figures were plotted by using default parameters in the Linux environment.

In addition, CLUSTAL-W alignments were converted to PHYLIP format and trees computed by the maximum likelihood method implemented by PROML using default parameters [ 90].