Documentation Scientific and Technical Beat

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ATpy

ATpy is a Python library for manipulating astronomical tables. Details are available at http://atpy.github.com/.

bowtie

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. Bowtie indexes the genome with a Burrows-Wheeler index to keep its memory footprint small: typically about 2.2 GB for the human genome (2.9 GB for paired-end). http://bowtie-bio.sourceforge.net/index.shtml.

DSDP

The DSDP software is a free open source implementation of an interior-point method for semidefinite programming. It provides primal and dual solutions, exploits low-rank structure and sparsity in the data, and has relatively low memory requirements for an interior-point method. It allows feasible and infeasible starting points and provides approximate certificates of infeasibility when no feasible solution exists. The dual-scaling algorithm implemented in this package has a convergence proof and worst-case polynomial complexity under mild assumptions on the data. For full documentation refer to http://www.mcs.anl.gov/hs/software/DSDP/.

fastx_toolkit

fastx_toolkit is a collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing. http://hannonlab.cshl.edu/fastx_toolkit/index.html.

IBSimu

Ion Beam Simulator or IBSimu is an ion optical computer simulation package for ion optics, plasma extraction and space charge dominated ion beam transport using Vlasov iteration. More information at http://ibsimu.sourceforge.net/.

gappa

gappa is a tool intended to help verifying and formally proving properties on numerical programs dealing with floating-point or fixed-point arithmetic. Fedora 16 upgrades to version 0.15.0. The project's web site may be found at http://gappa.gforge.inria.fr/.