I/O and utilities for the Consensus Multiple Alignment (CMA) file format.
Consensus Multiple Alignment format, using Biopython alignments.
I/O support and relevant functionality for the Consensus Alignment Format (CMA). This format represents protein sequence alignments. It is used by a few tools by Dr. Andrew F. Neuwald, notably CHAIN and MAPGAPS.
Biopython objects and conventions are used where possible.
This is an ordinary Python package. You can install it from source with the setup.py script:
python setup.py build python setup.py install
Stable releases are uploaded to PyPI as well, so you can install BioFrills with Python package managers:
pip install biofrills
Some scripts that I find useful are in the scripts/ directory. By default these are not installed, but you can include them by uncommenting the line in setup.py that starts with scripts=glob…
Alternatively, you can just copy those scripts into another directory in your $PATH.
The CMA format appears to have been invented by Dr. Andrew Neuwald at the University of Maryland, and is used in these programs:
Unless you’re working with MAPGAPS or CHAIN, no.