User:Wayne Decatur/Structure analysis tools: Difference between revisions
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* [[User:Wayne Decatur/I-Ppo Morph Methods]] - uses several structure analysis tools to generate a [[morph]] of a protein-nucleic acid complex | * [[User:Wayne Decatur/I-Ppo Morph Methods]] - uses several structure analysis tools to generate a [[morph]] of a protein-nucleic acid complex | ||
* [https://www.ebi.ac.uk/complexportal/complex/search?query=*&species=Saccharomyces%20cerevisiae%20(strain%20ATCC%20204508%20%2F%20S288c)&page=1 S. cerevisiae complexes] | * [https://www.ebi.ac.uk/complexportal/complex/search?query=*&species=Saccharomyces%20cerevisiae%20(strain%20ATCC%20204508%20%2F%20S288c)&page=1 S. cerevisiae complexes] | ||
==Python-based utilities== | |||
* [https://github.com/fhcrc/seqmagick seqmagick-An imagemagick-like frontend to Biopython SeqIO]. For example, it can convert from fasta to phylip, remove gaps from a fasta-formatted sequence, and describe all FASTA files in the current directory. Requires Biopython. | |||
* see also on [https://github.com/fomightez/structurework this page] 'Binder'/notebook-related items as I usually have worked out Python code to shuttle other command-line based software output to Python or demonstrate the scripts use | |||
* click `launch binder` [https://github.com/fomightez/cl_demo-binder here] for a series of demonstrations of useful resources on command line for manipulating structure files. | |||
==R-based utilities== | |||
* [https://github.com/fomightez/bio3d-binder Bio3D (an R library) example along with Bio3D Python in same Jupyter notebook examples] | |||
==My own structure work-related code== | |||
* [https://github.com/fomightez/structurework Structure/model manipulation Python code] | |||
* see also on [https://github.com/fomightez/structurework this page] 'Binder'/notebook-related items as I usually have worked out Python code to shuttle other command-line based software output to Python or demonstrate the scripts use | |||
==References== | ==References== | ||
