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Bowtie is an ultrafast, memory-efficient short read aligner. It aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour.

gff2ps is a script program developed with the aim of converting gff-formatted records into high quality one-dimensional plots in PostScript. Such plots maybe useful for comparing genomic structures and to visualizing outputs from genome annotation programs.

MUMmer is a modular system for the rapid whole genome alignment of finished or draft sequence. This package provides an efficient suffix tree library, seed-and-extend alignment, SNP detection, repeat detection, and visualization tools.

Migrate estimates effective population sizes and past migration rates between two or "n" populations assuming a migration matrix model with asymmetric migration rates and different subpopulation sizes. The n-population migrate can use sequence data, microsatellite data or electrophoretic data.

The NCBI (National Center for Biotechnology Information) development toolkit, containing various libraries needed by NCBI applications, as well as a software suite containing, amongst other things, NCBI BLAST 2.0. From the README: The NCBI Software Development Toolkit was developed for the production and distribution of GenBank, Entrez, BLAST, and related services by NCBI. We make it freely available to the public without restriction to facilitate the use of NCBI by the scientific community. However, please understand that while we feel we have done a high quality job, this is not commercial software. The documentation lags considerably behind the software and we must make any changes required by our data production needs. Nontheless, many people have found it a useful and stable basis for a number of tools and applications.

Bio::SCF module allows you to read and update (in a restricted way) SCF chromatographic sequence files. It is an interface to Roger Staden's io-lib. See the installation directions for further instructions.

Electric is a sophisticated electrical CAD system that can handle many forms of circuit design, including: - Custom IC layout (ASICs) - Schematic drawing - Hardware description language specifications For real functionality, one should consider installing support simulation software such as cad/spice.

GTKWave is a fully featured GTK+ based wave viewer for Unix and Win32 which reads LXT, LXT2, VZT, and GHW files as well as standard Verilog VCD/EVCD files and allows their viewing.

A IC/MEMS layout editor. Features: all angle, font generator, macros, boolean operations, design rule checker, crossplatform compatible, supported formats:Calma GDSII, OASIS (Open Artwork System Interchange Standard), DXF, CIF (Caltech Intermediate Form)

What is Z88? Z88 is a fast, powerful and compact Finite Elements Analysis Program especially designed for PCs, workstations and large computers with UNIX and PCs with Windows XP/95. FEATURES # Z88 features 20 finite element types. # It covers plane stress, plate bending, axial symmetric structures and spacial structures up to 20-node Serendipity hexahedrons. # Comes with a user-friendly interface (the Z88 Commander). # Has a powerful mesh generator. # Features a DXF converter and two plot programs. # Contains the FEA solver featuring an in-situ Cholesky solver along with the Jennings storage method. # For large structures the new iteration solver is recommended. # The import of COSMOS and NASTRAN files from Pro/ENGINEER (with option Pro/MECHANICA) is possible.