Sentence examples for manually improved using from inspiring English sources

The initial model was automatically built with ARP/wARP [24] and manually improved using the program COOT [25].

The model was manually improved using program Coot [33] to 80% completion before it was used as a MR model to be replaced into the 2.0 Å methylated native data set.

The resulting alignments were manually improved using the software bioedit 7.0.9 [ 33].

All the alignments were edited and manually improved using the ED program from the MUST package [ 46].

Both automatic alignments were manually improved using the BioEdit software [ 32], saved in PHYLIP format and further used to reconstruct phylogenetic trees applying a two-step maximum likelihood approach as follows.

Initial docking of clathrin model segments into the EM density map was carried out manually using the program O (Jones et al, 1991) and improved using rigid body refinement implemented in MAVE.

The multiple alignments were either taken directly from the output generated by Clustal or manually improved based on secondary structure information using JPred 3 [ 32].

Amino acid sequences have been aligned with ClustalW2 [ 47], manually improved and conserved regions selected with Gblocks (using permissive parameters) [ 48].

All the sequences were aligned using Bioedit ClustalW and the alignments were manually improved (Additional File 3).

Multiple alignments were performed with Clustal W [ 62] using the ClustalW web server at the Bioinformatics Center of the Kyoto University [ 63] or using ClustalW at the Belgian EMBnet Node and they were subsequently manually improved.

Multiple alignments were performed with Clustal W [ 27] using the ClustalW web server at the Bioinformatics Center of the Kyoto University [ 28] and they were subsequently manually improved.