Parsing

The solvent dielectric constant, ionic strength and temperature are chosen to fit the conditions of the experimental studies. The protein dielectric constant is assigned some small value, e.g. 4. The PB calculations are currently carried out with the atomic charges and radii of the PARSE parameter set, developed by Honig and coworkers [17] or that for CHARMM [12]. The PARSE parameter set... 

Thus, the conversion of chemical names into structures consists of parsing the name into longest text fragments. These fragments are submitted to lexical analysis and the derived lexical units are compared with a collection of predefined units in a dictionary. 

Table 6-3 shows an example of a molecule parsed into atom pairs and topological... 

Figure 5.10. The Algebraic Function. A instructions and available operators B a sample function C the parsed function D the [OK] button that initiates the parsing operation E the evaluation at x -- 2 F the [Continue] and [Exit] buttons.

Raw data is almost always incomplete, being highly dependent on the data production platform and often localized to a platform or regional database. Applications (and processes) generate data. However, applications often use proprietary data types and cannot parse data types from other third-party applications. It is important to consider that there are translation issues plus the host of reasons stated below in the requirements for data standards. 

Briefly, the process normally involves the following procedures, applied sequentially. The first two (zoning and parsing) are dependent on the source... 

Parsing extracting strings of characters based on pattern recognition and document layout. 

The way we have stated the domain theory for the state-space representation has enabled us to avoid making explicit reference to the alphabet symbol properties. However, if in other formulations we need to refer to these properties, we would again use a recursive parsing of the list of symbols to enable generalization over the size of the alphabet. 

A division of P into major blocks will correspond roughly speaking to a bottom-up parsing of P into blocks which are themselves almost trees - trees with reinitializations. Let us define ... 

Sutcliffe JG et al. TOGA an automated parsing technology for analysing expression of nearly all genes. Proc Natl Acad Sci USA 2000 97 1976-1981. 

The parsing of the transporter sequences into the TM domains shown in Fig. 1A represents the consensus result of three different methods. Average hydrophobicity was calculated with ProperTM using different window sizes and the Kyte and Doolittle scale (7). TMHMM, a hidden Markov model-based approach (8), and PHDHTM, a profile-based neural network method (9), were then utilized to refine the predictions. 

Command-line parser, a component to read commands and parse them against a command grammar... 

Hence, you should implement the technical architecture as early as possible. Have all communication paths working—from user input and command-line parsing to the data... 

Two examples of TrEMBLnew entries, created in the way described before, are shown in Fig. 4. In addition to this information parsed into TrEMBLnew entries, data are put in the annotator s section of the entry, which is not visible to the public. This is used for further analysis both by programs and by biologists and consists of ... 

It makes the documents both machine-readable so that they are easily parsed and processed electronically and allows the exchange of information between computer systems. It also makes them human-readable so that they can be easily retrieved and used by the people who need them. 

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