minor fixes/updates for PyPI upload

README.md

@@ -3,32 +3,17 @@
 <!-- badges: start -->
 ![install status](https://github.com/atgu/GWASpy/actions/workflows/install-ci.yml/badge.svg)
 
-Genome-wide association studies pypeline (GWASpy): A Python package for performing GWAS QC, PCA, and genotype imputation.
+Genome-wide association studies pypeline (GWASpy): A Python package for performing GWAS QC, PCA, haplotype phasing, and
+genotype imputation.
 
 ## Installation
-
-
-For now you can install GWASpy and its dependencies using the command below. In the near future, it will be uploaded to pypi
-
-1. Install non-Python dependencies. The above command assumes the user already has [Homebrew](https://brew.sh/)
-(MacOS) or [apt-get](https://linux.die.net/man/8/apt-get) (Linux) installed.
-
-```bash
-curl https://raw.githubusercontent.com/atgu/preimp_qc/main/env-setup.sh | bash
-```
-
-2. Clone the repo and install GWASpy and the required packages.
-Once the package is on [pypi](https://pypi.org/), it won't be ncessary to run ``pip install -r requirements.txt``
-
+GWASpy is available through [PyPI](https://pypi.org/project/gwaspy/). To install, run the command:
 ```bash
-# Install preimp_qc and its dependencies
-git clone https://github.com/atgu/GWASpy.git
-cd GWASpy/
-pip3 install -r requirements.txt
-python3 setup.py sdist
-pip3 install dist/GWASpy-0.1.0.tar.gz
+pip3 install gwaspy
 ```
 
 ## Usage
+For usage, please visit [GWASpy](https://gwaspy.readthedocs.io/)
 
-For usage, please visit [GWASpy](https://gwaspy.readthedocs.io/en/latest/index.html)
+## Copyright and License
+GWASpy is generously distributed under the [MIT License](https://github.com/atgu/GWASpy/blob/main/LICENSE)

setup.py

@@ -4,9 +4,9 @@
     long_description = fh.read()
 
 classifiers = [
-    'Development Status :: 1 - Planning',
+    'Development Status :: 4 - Beta',
     'Environment :: Console',
-    'Intended Audience :: Science/Research'
+    'Intended Audience :: Science/Research',
     'License :: OSI Approved :: MIT License',
     'Programming Language :: Python :: 3',
     'Programming Language :: Python :: 3.2',
@@ -22,12 +22,13 @@
     'Operating System :: MacOS'
 ]
 
-setup(name='GWASpy',
+setup(name='gwaspy',
       version='0.1.0',
       author='Lindokuhle Nkambule',
-      author_email='lnkambul (at) broadinstitute.org',
-      url='https://github.com/atgu/GWASpy',
-      description='GWASpy: A Python package for performing GWAS QC, PCA, and genotype imputation.',
+      author_email='[email protected]',
+      url='https://gwaspy.readthedocs.io/',
+      project_urls={"GitHub": "https://github.com/atgu/GWASpy"},
+      description='GWASpy: A Python package for performing GWAS QC, PCA, phasing, and genotype imputation.',
       long_description=long_description,
       long_description_content_type="text/markdown",
       license='MIT',
@@ -42,6 +43,6 @@
       },
       classifiers=classifiers,
       keywords='',
-      install_requires=['hail', 'matplotlib', 'numpy', 'pandas', 'pylatex'],
+      install_requires=['hail', 'matplotlib', 'numpy', 'pandas', 'pylatex', 'plotly'],
       zip_safe=False
       )