A decoding libary for the PDB mmtf format
Project description
[](https://travis-ci.org/rcsb/mmtf-python)
[](https://landscape.io/github/rcsb/mmtf-python/master)
[](https://github.com/rcsb/mmtf-python/) [](https://github.com/rcsb/mmtf-python/blob/master/LICENSE.txt)
[](https://github.com/rcsb/mmtf-python/blob/master/CHANGELOG.md)
The **m**acro**m**olecular **t**ransmission **f**ormat (MMTF) is a binary encoding of biological structures.
This repository holds the Python 2 and 3 compatible API, encoding and decoding libraries.
The MMTF python API is available from pip:
```
pip install mmtf-python
```
Quick getting started.
1) Get the data for a PDB structure and print the number of chains:
```python
from mmtf import fetch
# Get the data for 4CUP
decoded_data = fetch("4CUP")
print("PDB Code: "+str(decoded_data.structure_id)+" has "+str(decoded_data.num_chains)+" chains")
```
2) Show the charge information for the first group:
```python
print("Group name: "+str(decoded_data.group_list[0]["groupName"])+" has the following atomic charges: "+",".join([str(x) for x in decoded_data.group_list[0]["formalChargeList"]]))
```
3) Show how many bioassemblies it has:
```python
print("PDB Code: "+str(decoded_data.structure_id)+" has "+str(len(decoded_data.bio_assembly))+" bioassemblies")
```
[](https://landscape.io/github/rcsb/mmtf-python/master)
[](https://github.com/rcsb/mmtf-python/) [](https://github.com/rcsb/mmtf-python/blob/master/LICENSE.txt)
[](https://github.com/rcsb/mmtf-python/blob/master/CHANGELOG.md)
The **m**acro**m**olecular **t**ransmission **f**ormat (MMTF) is a binary encoding of biological structures.
This repository holds the Python 2 and 3 compatible API, encoding and decoding libraries.
The MMTF python API is available from pip:
```
pip install mmtf-python
```
Quick getting started.
1) Get the data for a PDB structure and print the number of chains:
```python
from mmtf import fetch
# Get the data for 4CUP
decoded_data = fetch("4CUP")
print("PDB Code: "+str(decoded_data.structure_id)+" has "+str(decoded_data.num_chains)+" chains")
```
2) Show the charge information for the first group:
```python
print("Group name: "+str(decoded_data.group_list[0]["groupName"])+" has the following atomic charges: "+",".join([str(x) for x in decoded_data.group_list[0]["formalChargeList"]]))
```
3) Show how many bioassemblies it has:
```python
print("PDB Code: "+str(decoded_data.structure_id)+" has "+str(len(decoded_data.bio_assembly))+" bioassemblies")
```
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
mmtf-python-1.0.6rc0.tar.gz
(46.5 kB
view details)
Built Distribution
File details
Details for the file mmtf-python-1.0.6rc0.tar.gz.
File metadata
- Download URL: mmtf-python-1.0.6rc0.tar.gz
- Upload date:
- Size: 46.5 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | a13d69e3f6d8b058d2a8e33464ceedb3154ea1b0776431f9f698374ff5799c79 |
|
| MD5 | bf35da3d64693ecea3a0ab509dd58734 |
|
| BLAKE2b-256 | cbccd4341e7f62545f645ce38914e46ff9df1001331fa1f5e2ce9b790ccd6d8d |
File details
Details for the file mmtf_python-1.0.6rc0-py2.py3-none-any.whl.
File metadata
- Download URL: mmtf_python-1.0.6rc0-py2.py3-none-any.whl
- Upload date:
- Size: 23.0 kB
- Tags: Python 2, Python 3
- Uploaded using Trusted Publishing? No
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 4adfb48efa77cf1a240d4b675a9a827bbaf2a235f53977a3f1e44ef54971faa5 |
|
| MD5 | 1d5a767e732a76d29ad717794f7062b2 |
|
| BLAKE2b-256 | 7acc2aeefb1048a19422eabe6d03f6d24021609f08a9aa44d633801acfd7cceb |
