diff --git a/docs/.ipynb_checkpoints/README-checkpoint.ipynb b/docs/.ipynb_checkpoints/README-checkpoint.ipynb
new file mode 100644
index 0000000..1c152d4
--- /dev/null
+++ b/docs/.ipynb_checkpoints/README-checkpoint.ipynb
@@ -0,0 +1,57 @@
+{
+ "cells": [
+ {
+ "cell_type": "markdown",
+ "metadata": {},
+ "source": [
+ "# LISA: Landscape In-Silico deletion Analysis\n",
+ "
\n",
+ "\n",
+ "## About\n",
+ "\n",
+ "LISA predicts which TFs regulate a set of genes using integrative modeling of chromatin accessiblity and ChIP-seq binding. Particularly, LISA models the effects of deleting the influence of a TF on the expression of the genes-of-interest. For more information, see https://genomebiology.biomedcentral.com/articles/10.1186/s13059-020-1934-6. This implementation extends the original, running 30x faster, reducing dependencies, and adding useful CLI functions for pipeline integration. "
+ ]
+ },
+ {
+ "cell_type": "markdown",
+ "metadata": {},
+ "source": [
+ "## Requirements\n",
+ "\n",
+ "* python >= 3.6\n",
+ "* numpy, scipy, scikit-learn, and h5py\n",
+ "* ~15GB of storage space"
+ ]
+ },
+ {
+ "cell_type": "markdown",
+ "metadata": {},
+ "source": [
+ "## Installation\n",
+ "\n",
+ "LISA is available for install from PyPI. It is recommended that you set up a virtual environment using ```venv```, then run:"
+ ]
+ }
+ ],
+ "metadata": {
+ "kernelspec": {
+ "display_name": "lisa_test",
+ "language": "python",
+ "name": "lisa_test"
+ },
+ "language_info": {
+ "codemirror_mode": {
+ "name": "ipython",
+ "version": 3
+ },
+ "file_extension": ".py",
+ "mimetype": "text/x-python",
+ "name": "python",
+ "nbconvert_exporter": "python",
+ "pygments_lexer": "ipython3",
+ "version": "3.7.3"
+ }
+ },
+ "nbformat": 4,
+ "nbformat_minor": 4
+}
diff --git a/docs/README.ipynb b/docs/README.ipynb
deleted file mode 100644
index 5dc94d5..0000000
--- a/docs/README.ipynb
+++ /dev/null
@@ -1,125 +0,0 @@
-{
- "cells": [
- {
- "cell_type": "code",
- "execution_count": 1,
- "metadata": {},
- "outputs": [],
- "source": [
- "!source /Users/alynch/projects/.venvs/lisa_test/bin/activate"
- ]
- },
- {
- "cell_type": "code",
- "execution_count": 2,
- "metadata": {},
- "outputs": [],
- "source": [
- "import lisa"
- ]
- },
- {
- "cell_type": "code",
- "execution_count": 4,
- "metadata": {},
- "outputs": [],
- "source": [
- "import pandas as pd"
- ]
- },
- {
- "cell_type": "code",
- "execution_count": 9,
- "metadata": {},
- "outputs": [],
- "source": [
- "c = pd.read_csv('/Users/alynch/projects/.venvs/lisa_test/lib/python3.7/site-packages/lisa/data/hg38/metadata/Motifs.tsv',\n",
- " sep = '\\t', encoding = 'latin')"
- ]
- },
- {
- "cell_type": "code",
- "execution_count": 11,
- "metadata": {},
- "outputs": [
- {
- "data": {
- "text/plain": [
- "0 ATF2::JUN\n",
- "1 IRF1\n",
- "2 TFCP2\n",
- "3 RUNX1\n",
- "4 ZBTB6\n",
- " ... \n",
- "1056 ELF2\n",
- "1057 Etv5\n",
- "1058 Elf4\n",
- "1059 Etv6\n",
- "1060 Gm5454\n",
- "Name: symbol, Length: 1061, dtype: object"
- ]
- },
- "execution_count": 11,
- "metadata": {},
- "output_type": "execute_result"
- }
- ],
- "source": [
- "c.symbol"
- ]
- },
- {
- "cell_type": "code",
- "execution_count": 13,
- "metadata": {},
- "outputs": [
- {
- "data": {
- "text/plain": [
- "Index(['id', 'edition', 'source', 'sourcefile', 'status', 'numseqs', 'pmid',\n",
- " 'dbd', 'family', 'description', 'species', 'cellline', 'entrez',\n",
- " 'symbol', 'synonym', 'refseq', 'cluster', 'comment2', 'comment2.1',\n",
- " 'comment3', 'comment4', 'comment5', 'datasetid', 'zscore', 'seqfactors',\n",
- " 'seqdbds', 'seqdatasetid', 'nmotifs', 'pssm'],\n",
- " dtype='object')"
- ]
- },
- "execution_count": 13,
- "metadata": {},
- "output_type": "execute_result"
- }
- ],
- "source": [
- "c.columns"
- ]
- },
- {
- "cell_type": "code",
- "execution_count": null,
- "metadata": {},
- "outputs": [],
- "source": []
- }
- ],
- "metadata": {
- "kernelspec": {
- "display_name": "bioenv",
- "language": "python",
- "name": "bioenv"
- },
- "language_info": {
- "codemirror_mode": {
- "name": "ipython",
- "version": 3
- },
- "file_extension": ".py",
- "mimetype": "text/x-python",
- "name": "python",
- "nbconvert_exporter": "python",
- "pygments_lexer": "ipython3",
- "version": "3.6.10"
- }
- },
- "nbformat": 4,
- "nbformat_minor": 4
-}
diff --git a/setup.py b/setup.py
index a33503a..8c1ed99 100644
--- a/setup.py
+++ b/setup.py
@@ -23,4 +23,5 @@
'scikit-learn'
],
include_package_data=True,
+ python_requires='>=3.6',
)
\ No newline at end of file