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This is a code for the sentence parsing that does its job properly and FAST.
The main problem is that you really need a database of abbreviations so that phrases such as "Dr. Smith" are not calculated as 2 sentences, which means that the good parser must be language dependent. I am also providing a list of all English abbreviations with the code.
You can always tweak the code to get a nicer output, but the main idea is still there, and completed with this little program.
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MOVED TO GITHUB: https://github.com/noporpoise/seq-align
Global optimal sequence alignment using the Needleman-Wunsch algorithm.
Aligns DNA, RNA, protein sequence and more!
See our sister project local alignment using Smith-Waterman:
http://sourceforge.net/projects/smithwaterman/
A simple JDBC framework (JAR) by Jeff Smith. Employs database independent, unchecked exception code. Supports Oracle, mySQL, HSQL, and PostgreSQL--can be easily extended to new databases. See article (origninally published on Developer.com) here: http://softtechdesign.com/products/SQLExecutor/SQLExecutor.htm
...Included are quality control, read demultiplexing and microbiome characterisation scripts for use with usearch, pplacer and RDP classifier.
The package was used to produce the data presented in Smith et al. (2012) "The Cervical Microbiome over 7 Years and a Comparison of Methods for its Characterization".
MOVED TO GITHUB: https://github.com/noporpoise/seq-align
An implementation of the Smith-Waterman local sequence alignment algorithm.
See our sister project global alignment using Needleman-Wunsch:
http://sourceforge.net/projects/needlemanwunsch/
JFinisher is software for alignment, editing and manipulation DNA seqs
JFinisher is software for alignment, editing and manipulation of biological sequences. It aims to assist in the finishing of genome assembly. Starting from a reference sequence, the program align contigs using Smith-Waterman local alignment algoritm with auxiliary methods, allowing management of the alignments generated. It has graphical interface for manipulation and visualization of the actions, uniting features that help in editing the sequences. It has internal projects manageable and ability to export results in the standard formats of the area.
A javascript calendar control for web client development. The interaction is inspired by windows system calendar selector. It is tiny, pure javascript, easy to use, and control style by css.
Smith is an powerful scriptlanguare witch is still in development. Smith has an own IDE and is at the moment only available for Linux It will be full Integrated into Lazarus for more power. For more Information see the Wiki: http://smith.akaikee.de
A simple javascript version of Smith Html Editor for web client. It is very tiny and have most functions done. And currently it works fine in Chrome and IE7+.
A log anomaly detector tool which uses a modified Smith Waterman algorithm to identify matching (or non-matching) messages, against archived syslog messages in real time.
This is a small program to show impedances in a Smith Chart. The chart is drawn (it is not an image), so it can be redimensioned without pixeling. As it's done with Qt 4, it should run in multiple platforms.
Multi-functional batch sequence aligner incorporating Needleman-Wunsch, Smith-Waterman and Oommen-Kashyap algorithms along with compound alignment of secondary sequences.
Abstracts developers from SQL syntax, with methods that return Strings to pass on to JDBC, thus allowing compile-time checking for, many, otherwise run-time bugs. e.g. stmt.executeQuery(SqlWrapper.selectId(ordersTable, customerColumn, "John Smith")
An efficient implementation of the Smith-Waterman algorithm that takes advantage of SIMD instruction sets in modern CPUs. The Smith-Waterman algorithm is used for sequence alignment in bioinformatics.
Smith is an open source, cross-platform ColdFusion® engine, written entirely in Java. Running on top of Java Runtime Environment and Java Servlet Container, it can be deployed virtually on any operating system and work with any web server.
Stop searching for your notes on that interesting book written by some person called Smith - now they're only a few clicks away. BibWorm is your complete research management tool, bringing together your bibliographical data and your documents/notes.
JAligner is an open source Java implementation of the dynamic programming algorithm Smith-Waterman with Gotoh's improvement for biological local pairwise sequence alignment with the affine gap penalty model.
NeoBio is a Java class library of Computational Biology Algorithms. The current version consists mainly of pairwise sequence alignment algorithms such as the classical dynamic programming methods of Needleman-Wunsch and Smith-Waterman.