From Fedora Project Wiki
(Removed FASTA because of non-commercial clause in license: http://faculty.virginia.edu/wrpearson/fasta/COPYRIGHT) |
mNo edit summary |
||
| (29 intermediate revisions by 9 users not shown) | |||
| Line 1: | Line 1: | ||
* [http:// | * [http://vina.scripps.edu/ Autodock Vina] - Tool for drug discovery, molecular docking and virtual screening. There's a package under http://copr.fedoraproject.org/coprs/loveshack/livhpc/ | ||
* [ftp://ftp.ncbi.nih.gov/toolbox/ NCBI | * <del>[http://copasi.org/ COPASI] - Simulation and analysis of biochemical networks and their dynamics, supports SBML standard for models</del> See [https://admin.fedoraproject.org/pkgdb/package/rpms/COPASI/ COPASI] | ||
* [http://www.cytoscape.org/ Cytoscape] - Platform for the analysis and visualization of complex networks, in particular molecular interaction networks and biological pathways | |||
* [https://sourceforge.net/projects/gentle-m/ GENtle] - DNA restriction analysis and cloning tool similar to VectorNTI | |||
* [http://www.broadinstitute.org/igv/ Integrative Genomics Viewer] - java-based graphical genomics viewer (licensed under GPLv2) | |||
* [http://www.chevreux.org/projects_mira.html MIRA] - Genome fragment assembler for sequencing projects classified as 'hard' due to high number of similar repeats. Uses '''non-free jlfgr''' -- see Debian packaging. | |||
* [ftp://ftp.ncbi.nih.gov/toolbox/ NCBI BLAST and other tools] - The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. | |||
** ncbi-blast+ packaged by jkaluza - https://bugzilla.redhat.com/show_bug.cgi?id=999383 | |||
* [http://www.ncbi.nlm.nih.gov/IEB/ToolBox/SDKDOCS/INDEX.HTML NCBI C Toolkit ] - NCBI libraries and tools for biology applications [http://www.environnement.ens.fr/perso/dumas/fc-srpms/ncbi-6.1.20081116a-1.fc10.src.rpm srpm here] | |||
* [http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/ NCBI C++ Toolkit ] - a new generation of NCBI libraries and tools for biology | |||
* [https://sourceforge.net/projects/pyqpcr/ pyQPCR] - qPCR analysis tool | |||
* [http://staden.sourceforge.net/ Staden] - sequence handling and analysis software developed at the Medical Research Council Laboratory of Molecular Biology, Cambridge, UK | |||
* [http://www.mygrid.org.uk/tools/taverna/ Taverna] - Tool for automation of experimental workflows. | |||
* [http://www.physionet.org/physiotools/wfdb.shtml The WFDB Software Package] - Software for viewing, analyzing, and creating recordings of physiologic signals | |||
<noinclude> | <noinclude> | ||
Latest revision as of 11:18, 26 December 2015
- Autodock Vina - Tool for drug discovery, molecular docking and virtual screening. There's a package under http://copr.fedoraproject.org/coprs/loveshack/livhpc/
COPASI - Simulation and analysis of biochemical networks and their dynamics, supports SBML standard for modelsSee COPASI- Cytoscape - Platform for the analysis and visualization of complex networks, in particular molecular interaction networks and biological pathways
- GENtle - DNA restriction analysis and cloning tool similar to VectorNTI
- Integrative Genomics Viewer - java-based graphical genomics viewer (licensed under GPLv2)
- MIRA - Genome fragment assembler for sequencing projects classified as 'hard' due to high number of similar repeats. Uses non-free jlfgr -- see Debian packaging.
- NCBI BLAST and other tools - The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences.
- ncbi-blast+ packaged by jkaluza - https://bugzilla.redhat.com/show_bug.cgi?id=999383
- NCBI C Toolkit - NCBI libraries and tools for biology applications srpm here
- NCBI C++ Toolkit - a new generation of NCBI libraries and tools for biology
- pyQPCR - qPCR analysis tool
- Staden - sequence handling and analysis software developed at the Medical Research Council Laboratory of Molecular Biology, Cambridge, UK
- Taverna - Tool for automation of experimental workflows.
- The WFDB Software Package - Software for viewing, analyzing, and creating recordings of physiologic signals