Skip to content

Commit

Permalink
Added tutorial, testing to get minimal dependencies in requirements.txt
Browse files Browse the repository at this point in the history
  • Loading branch information
BradBalderson committed Aug 11, 2022
1 parent a51a391 commit 28007b2
Show file tree
Hide file tree
Showing 2 changed files with 706 additions and 1 deletion.
9 changes: 8 additions & 1 deletion README.md
Original file line number Diff line number Diff line change
@@ -1,6 +1,11 @@
# Cytocipher - detection of significantly different cell populations in scRNA-seq
![title](img/cytocipher_icon.png)

For a more complete tutorial that installs cytocipher &
reproduces the pancreatus development analysis,
please see
[here](https://github.com/BradBalderson/Cytocipher/tree/main/tutorials/cytocipher_pancreas.ipynb).

## Installation
pip install coming soon, for this early release,
just going with git clone, add to path, and pip install -r requirements.txt.
Expand All @@ -14,7 +19,9 @@ source code to your current working directory***).
```
!git clone https://github.com/BradBalderson/Cytocipher.git
!pip install -r Cytocipher/requirements.txt
!pip install --no-deps scanpy==1.9.1
```
```
import sys
sys.path.append('Cytocipher')
Expand Down
698 changes: 698 additions & 0 deletions tutorials/cytocipher_pancreas.ipynb

Large diffs are not rendered by default.

0 comments on commit 28007b2

Please sign in to comment.