Difference between revisions of "CompareCath.py"
From Bioinformatikpedia
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-i IFILE with parse_output.pl created results file (default: None) |
-i IFILE with parse_output.pl created results file (default: None) |
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-q QUERY PDB id and chain of query, e.g. 1a6zA (default: None) |
-q QUERY PDB id and chain of query, e.g. 1a6zA (default: None) |
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| + | The input is the results file from parse_output.pl for (Psi)Blast. |
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In CATH each domain of the protein is assigned to a fold class. This means, that one query protein can have several fold classes, one for each domain. |
In CATH each domain of the protein is assigned to a fold class. This means, that one query protein can have several fold classes, one for each domain. |
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Revision as of 20:34, 5 May 2013
The script compareCath.py can be found on the biocluster at /home/alexander/studium/master-prac/scripts.
usage: compareCath.py [-h] -i IFILE -q QUERY optional arguments: -h, --help show this help message and exit -i IFILE with parse_output.pl created results file (default: None) -q QUERY PDB id and chain of query, e.g. 1a6zA (default: None)
The input is the results file from parse_output.pl for (Psi)Blast.
In CATH each domain of the protein is assigned to a fold class. This means, that one query protein can have several fold classes, one for each domain. This pyhton script computes the number of fold classes that each hit has in common with the specified query. The output is a histogram histogram of the number of same fold classes per protein for all pdb hits.
