Difference between revisions of "CompareCath.py"
From Bioinformatikpedia
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| − | The script compareCath.py can be found on the biocluster at / |
+ | The script compareCath.py can be found on the biocluster at /mnt/home/student/betza/scripts. |
| − | usage: compareCath.py [-h] -i IFILE -q QUERY |
+ | usage: compareCath.py [-h] -i IFILE -q QUERY |
| + | optional arguments: |
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| − | |||
| − | optional arguments: |
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-h, --help show this help message and exit |
-h, --help show this help message and exit |
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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. |
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| + | |||
| − | This pyhton script computes the number of fold classes that each hit has in common with the specified query and the output is a histogram. |
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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. |
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| + | 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. |
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Latest revision as of 18:07, 6 May 2013
The script compareCath.py can be found on the biocluster at /mnt/home/student/betza/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.
