Installation

This page includes instructions for installing scSemiProfiler.

Prerequisites

First, install Anaconda for your operating system if you have not. You can find specific instructions for different operating systems here.

Second, create a new conda environment and activate it:

conda create -n semiprofiler python=3.9
conda activate semiprofiler

Finally, install the version of PyTorch compatible with your devices by following the instructions on the official website.

Installing scSemiProfiler

There are 2 options to install scSemiProfiler.

Option 1: Install from download directory

Download scSemiProfiler from the GitHub repository, go to the downloaded scSemiProfiler root directory and use pip tool to install:

pip install .

Option 2: Install from Github

pip install --upgrade https://github.com/mcgilldinglab/scSemiProfiler/zipball/main

The installation should take less than 2 minutes. The environment.txt file includes information about the environment that we used to test scSemiProfiler.