معرفی شرکت ها
correlationplus-0.2.1
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشتر
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشتر
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشتر
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشتر
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشترتوضیحات
A Python package to calculate, visualize and analyze correlations of proteins.
| ویژگی | مقدار |
|---|---|
| سیستم عامل | - |
| نام فایل | correlationplus-0.2.1 |
| نام | correlationplus |
| نسخه کتابخانه | 0.2.1 |
| نگهدارنده | [] |
| ایمیل نگهدارنده | [] |
| نویسنده | Mustafa Tekpinar |
| ایمیل نویسنده | tekpinar@buffalo.edu |
| آدرس صفحه اصلی | https://github.com/tekpinar/correlationplus |
| آدرس اینترنتی | https://pypi.org/project/correlationplus/ |
| مجوز | LGPL |
[](https://pypi.org/project/correlationplus/)
[](https://pypi.org/project/correlationplus/)
[](https://opensource.org/licenses/LGPL-3.0)
[](http://correlationplus.readthedocs.org/en/latest/#)
[](https://hub.docker.com/repository/docker/structuraldynamicslab/correlationplus)
[](https://archive.softwareheritage.org/browse/origin/?origin_url=https://github.com/tekpinar/correlationplus)
# correlationplus
A Python package to calculate, visualize and analyze correlation maps of proteins.
correlationplus contains four main scripts that you can use to calculate, visualize
and analyze correlation maps of proteins.
These correlations can be dynamical cross-correlations, linear mutual
information, sequence based covariation/coevolution or any other pairwise coupling metric.
You can use elastic network models or your molecular dynamics trajectories for calculation
of dynamical correlations.
## Video Tutorials
* Installation: https://www.youtube.com/watch?v=Fc_xpnrbbWU
* Calculate Module: https://www.youtube.com/watch?v=04b7mdulHW8
* Visualize Module: https://www.youtube.com/watch?v=HgUVAV1unXs
* Analyze Module: https://www.youtube.com/watch?v=04BwJDauOn4
* Sequence Conservation Analysis with CoeViz and correlationplus (Part 1): https://www.youtube.com/watch?v=ieu91glEd0s
* Sequence Conservation Analysis with CoeViz and correlationplus (Part 2): https://www.youtube.com/watch?v=BuxQNFoid1A
## Installation
We recommend one of the installation methods for regular users:
### with pip
The pip version required by some dependencies is >= 21.0.1, which is not the pip version bundle with python 3.(6,7,8)
So, you have to update pip before installing *correlationplus*. Otherwise, you will have trouble during *MDAnalysis* dependency installation.
For this reason, we **strongly** encourage you to install correlationplus in a [virtualenv](https://virtualenv.pypa.io/en/latest/).
```bash
python3 -m venv correlationplus
cd correlationplus
source bin/activate
python3 -m pip install -U pip
python3 -m pip install correlationplus
```
if you want to install it without using a virtualenv
and encounter an error related to llvmlite, you can
solve it as follows:
```bash
python3 -m pip install llvmlite --ignore-installed
python3 -m pip install correlationplus
```
or if you do not have administration rights
```bash
python3 -m pip install --user llvmlite --ignore-installed
python3 -m pip install --user correlationplus
```
### with conda
```bash
conda install -c bioconda correlationplus
```
Most of the time, at least one these methods will be sufficient for the installation.
However, if these two methods didn't work for any reason, you can take a look
to 'Advanced Installation' instructions at
https://correlationplus.readthedocs.io/en/latest/installation.html#advanced-installation.
## Quickstart
There are four main scrips:
* calculate
* visualize
* analyze
* paths
You can find details of each script with the following commands:
```bash
correlationplus calculate -h
correlationplus visualize -h
correlationplus analyze -h
correlationplus paths -h
```
Go to our [readthedocs](https://correlationplus.readthedocs.io/en/latest/quickstart.html) for
detailed usage examples for each script.
## Cite
If you use correlationplus, please cite us:
**Extracting Dynamical Correlations and Identifying Key Residues for Allosteric Communication in Proteins by correlationplus**
Mustafa Tekpinar, Bertrand Neron, and Marc Delarue
Journal of Chemical Information and Modeling Article ASAP
[DOI: 10.1021/acs.jcim.1c00742](https://pubs.acs.org/doi/10.1021/acs.jcim.1c00742)
## Licensing
*correlationplus* is developed and released under [GNU Lesser GPL Licence](https://www.gnu.org/licenses/lgpl-3.0.en.html).
Please read to the **COPYING** and **COPYING.LESSER** files to know more.
نیازمندی
| مقدار | نام |
|---|---|
| ==1.76 | biopython |
| >=1.1.0 | MDAnalysis |
| <=3.3.4,>=3.2.2 | matplotlib |
| >=2.5.1 | networkx |
| - | prody |
| >=0.50.0 | numba |
زبان مورد نیاز
| مقدار | نام |
|---|---|
| >=3.6 | Python |
نحوه نصب
نصب پکیج whl correlationplus-0.2.1:
pip install correlationplus-0.2.1.whl
نصب پکیج tar.gz correlationplus-0.2.1:
pip install correlationplus-0.2.1.tar.gz