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Version 3 of the FASTA packages contains many programs for searching DNA and protein databases and one program (prss3) for evaluating statistical significance from randomly shuffled sequences. Several additional analysis programs, including programs that produce local alignments, are available as part of version 2 of the FASTA package, which is available as the port biology/fasta. FASTA is described in: W. R. Pearson and D. J. Lipman (1988), "Improved Tools for Biological Sequence Analysis", PNAS 85:2444-2448; W. R. Pearson (1996) "Effective protein sequence comparison" Meth. Enzymol. 266:227-258; Pearson et. al. (1997) Genomics 46:24-36; Pearson, (1999) Meth. in Molecular Biology 132:185-219. The FASTA3 suite is distributed freely subject to the condition that it may not be sold or incorporated into a commercial product.

Visualizing the results of molecular orbital calculations 1) MO program: gaussian, gamess, mopac, etc. 2) display molecule in 3D: geo-opt, single-point, nomal mode (animation) 3) density: contour plot or 3D view for electron density and MO coefficient Everything what you want about MO calculation can be seen. By the distribution policy of the author; * Only the latest version is supplied. * Users must get the `distfiles' from the original site. * Do not re-distribute the source and the executable. * Using a not-so-latest version is prohibited, because the author may only respond about the latest version.

LibSBML is an open-source programming library to help you read, write, manipulate, translate, and validate SBML files and data streams. It is not an application itself (though it does come with example programs), but rather a library you can embed in your own applications. LibSBML understands all Levels and Versions of SBML, as well as the SBML Layout proposal by Gauges, Rost, Sahle and Wegner. It's written in ISO C and C++ but can be used from all the languages listed in the right-hand box.

PSI/88 Version 1.0 by W. L. Jorgensen & D. L. Severance To plot wavefunctions in three dimensions from semi-empirical and most popular ab initio basis sets. Valence semi-empirical, STO-3G, 3-21++G(*) and 6-31++G(d,p) basis sets are implemented for atoms H-Ar. On-line manual is available at this web site. You can also download the source code of psi88 from the above site as a ``psi88.tar.gz''. When you do ungzip and untar this archive, you will obtain some documents and the ``psi88.tar.Z'' file which is required at this port.

Tinker is a set of small programs for doing general purpose molecular modeling calculations. Tools are included for energy minimizations, geometry calculations, simulated annealing, molecular dynamics, and molecular analysis calculations. Tools for converting coordinate sets are also provided. Tinker employs several force fields and minimization techniques. This port sets the maxatm value to 2500 atoms. This should be sufficient for most molecular systems. Should you need to work with larger systems you can set the maxatm parameter in the sizes.i file located in the tinker/source directory and recompile. Note that if it is set too large that tinker programs will abort and core dump. For more information about Tinker see:

ChipVault is a VHDL and Verilog Chip Design Organization tool which improves design efficiency by: - Providing the ability to Navigate and Edit files Hierarchically. - Automatically generating Schematic Component Port views of VHDL and Verilog RTL files. - Automating RTL instantiation and template generation. - Providing Revision Control (designed for HW, not SW development). - Supporting External Tool Hooks (bottom-up vcoms,etc). - Providing an Issue Tracking Log with sorting. - Providing Netlist sorting and hierarchy viewing. - Supporting web-sharing of RTL files (both encrypted and clear). - Fast and Nimble.

Muni finds the Unicode value of the 7773 Chinese characters listed in Matthews' Chinese-English Dictionary. You enter the character number found in the dictionary, and it will give you the corresponding Unicode mapping, or tell you when no such mapping has been defined. Rather than just entering the number, you can type in a query, for example: % muni : What is Unicode mapping for "Yung", listed in Matthews' Dictionary : as character 7589? - Matthews(7589) = U+6C38 : Thank you. How about 3268, Matthews' number for "Kang"? - Matthews(3268) = U+525B : Thank you, Mr. Computer. : ^D %

Perl 5.7.3 and later ships with an adequate set of Chinese encodings, including the commonly used CP950, CP936 (also known as GBK), Big5 (alias for Big5-Eten), Big5-HKSCS, EUC-CN, HZ, and ISO-IR-165. However, the numbers of Chinese encodings are staggering, and a complete coverage will easily increase the size of perl distribution by several megabytes; hence, this CPAN module tries to provide the rest of them. If you are using perl 5.8 or later, Encode::CN and Encode::TW will automatically load the extra encodings for you, so there's no need to explicitly write use Encode::HanExtra if you are using one of them already.

This is a perl version of simplified Chinese word segmentation. The algorithm for this segmenter is to search the longest word at each point from both left and right directions, and choose the one with higher frequency product. The original program is from the CPAN module Lingua::ZH::WordSegment (http://search.cpan.org/~chenyr/) I did the follwing changes: 1) make the interface object oriented; 2) make the internal string into utf8; 3) using sogou's dictionary (http://www.sogou.com/labs/dl/w.html) as the default dictionary.

Mgetty is a "smart" getty replacement, designed to be used with Hayes compatible data and data/fax modems. Mgetty knows about modem initialization, manual modem answering (so your modem doesn't answer if the machine isn't ready), UUCP locking (so you can use the same device for dial-in and dial-out). Mgetty provides very extensive logging facilities. Sendfax sends the named g3 fax files to the fax machine at "phone number". The g3 files can be created with pbmtog3(1) or GNU's GhostScript with the "digifax" driver.