User:Wayne Decatur/Sequence analysis tools: Difference between revisions
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* [http://biit.cs.ut.ee/gprofiler/ ProViz] - a web-based visualization tool to investigate the functional and evolutionary features of protein sequences. | * [http://biit.cs.ut.ee/gprofiler/ ProViz] - a web-based visualization tool to investigate the functional and evolutionary features of protein sequences. | ||
* [http://prody.csb.pitt.edu/index.html ProDy Project] - "ProDy is a free and open-source Python package for protein structural dynamics analysis". Looks like it does protein sequence analysis too and working with PDB files. | * [http://prody.csb.pitt.edu/index.html ProDy Project] - "ProDy is a free and open-source Python package for protein structural dynamics analysis". Looks like it does protein sequence analysis too and working with PDB files. | ||
==BLAST+== | |||
* [https://github.com/fomightez/blast-binder Blast-binder - Launchable Jupyter environment for running command line-based BLAST via Binder.]. That page also links to the main BLAST resources there. The launched notebooks illustrate ways to easily work with the output in Python. | |||
==Converters== | ==Converters== | ||
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==Orthology== | ==Orthology== | ||
* [http://eggnogdb.embl.de/#/app/home EggNOG] - A database of orthologous groups and functional annotation | * [http://eggnogdb.embl.de/#/app/home EggNOG] - A database of orthologous groups and functional annotation | ||
==Pattern Matching | |||
* [https://github.com/fomightez/patmatch-binder patmatch-binder- Launchable Jupyter environment for running command line-based PatMatch via Binder]. That page also links to other sequence pattern matching resources. The launched notebooks illustrate ways to easily work with the output in Python. | |||
