http://www.bioshell.pl pl Kanał RSS serwisu www.bioshell.pl e-studio.biz.pl Białystok - CMS2.0 dgront@gmail.com dgront@gmail.com Fri, 05 Aug 2011 20:56:05 +0200 Fri, 05 Aug 2011 20:56:05 +0200 http://www.bioshell.pl/s,option_system_in_bioshell__part_i,52.html Originally the BioShell package has been started as a set of command line tools which are still actively developed. Recently the library responsible for command line parsing has been redesigned and rewritten to provide users additional functionality and to make the software more error-proof. Fri, 05 Aug 2011 20:56:05 +0200 http://www.bioshell.pl/s,efficient_data_storage_with_serialization,51.html Protein conformations are usually stored in the PDB file format. It certainly has many advantages, but the files use a lot of disk space and their reading-in takes much time. Here is how to use serialization for gaining speed and recapturing space Sun, 31 Jul 2011 10:03:09 +0200 http://www.bioshell.pl/s,chi_angles_statistics_quickie,50.html BioShell can easily produce statistics for pretty many structural properties. For instance, let's create a histogram for Chi1 dihedral angle separately for each amino acid type. Tue, 26 Jul 2011 23:43:51 +0200 http://www.bioshell.pl/s,bioshell_package_has_a_new_website,17.html The website contains several new features such as blog and users' forum that will certainly facilitate the communications between users of the package and its developers. The new contents is continuously comming, so stay tuned! Tue, 26 Jul 2011 16:25:08 +0200 http://www.bioshell.pl/s,pdb_data_model_in_bioshell,47.html Protein molecule can be considered on several levels: as a set of chains, a set of residues or as a set of atoms. In BioShell each of these elements is represented by an object i.e. a module that can be used in a script. A protein (i.e. an object of Protein class) is a container for chains. Each chains (object of Chain) is a set of residues. Finally a residue (Residue object) contains atoms (Atom objects) Mon, 13 Jun 2011 13:05:23 +0200 http://www.bioshell.pl/s,new_version_of_bioshell_has_been_published,46.html The philosophy of BioShell has been changed. The project evolved into a library of modules suited for many bioinformatics tasks, such as data processing and comparative modeling. BioShell logo and website have been changed as well. Mon, 13 Jun 2011 08:59:06 +0200