map a string of whitespace seperated entries from one format onto another using uniprots mapping api
Args:
query: to be mapped
f: from ACC | P_ENTREZGENEID | ...
t: to ...
format: tab by default
Help:
for a list of all possible mappings visit
'http://www.uniprot.org/faq/28'
Installation
From pypi (recommended)
pip install uniprot_mapper
From source (UNIX) as standalone
Clone the git repository
git clone https://github.com/jdrudolph/uniprot_mapper.git
Make the script executable and add it to your PATH:
chmod +x uniprot_mapper/uniprot_mapper/uniprot_mapper.py cd /usr/local/bin sudo ln -s /path/to/uniprot_mapper.py .
Example
standalone
uniprot_mapper.py ACC P_ENTREZGENEID acc_file map_file
This will read UniprotIDs seperated by whitespaces from acc_file and store them to map_file.
Using a pipe:
echo P31749 | uniprot_mapper.py ACC P_ENTREZGENEID
will print the result to stdout which can be redirected further
inside a python script
import uniprot_mapper as mapper
print mapper.map('P31749')
1 maintainer
Metadata
1 maintainer
Release files for uniprot_mapper 0.6
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
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| uniprot_mapper-0.6.tar.gz | 2.8 kB | Details |
Release files / uniprot_mapper-0.6.tar.gz
| Download URL | uniprot_mapper-0.6.tar.gz |
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| Size | 2.8 kB |
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