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github.com/drugilsberg/interact @0.0.1
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● updated 3y ago0.0.1 · 2019-02-25★ 38
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README
INtERAcT
The interact package provide an implementation of INtERAcT (Interaction networks from vector representation of words) together with a selection of different metrics. Additionally, it exposes various utilities parse data from STRING DB, UniProt and files in gmt format.
INtERAcT is also available as a service on IBM Cloud. For details check the paper.
Installation
Setup of the virtual environment
We strongly recommend to work inside a virtual environment (venv).
Create the environment:
python3 -m venv venv
Activate it:
source venv/bin/activate
Install dependencies
pip3 install -r requirements.txt
Module installation
The module can be installed either in editable mode:
pip3 install -e .
Or as a normal package:
pip3 install .
Check the folder examples for a quick start on inferring interaction from an embedding using interact.
Core symbols most depended-on inside this repo
download_from_urlcalled by 5
interact/generic.py
_map_indices_with_series
called by 4
interact/nn_tree.py
_filter_indices_with_labels
called by 2
interact/roc.py
filter_interaction_table_by_labels
called by 2
interact/generic.py
interactions_to_edges
called by 2
interact/generic.py
install
called by 1
setup.py
run
called by 1
setup.py
_nn_data_to_clusters_counts
called by 1
interact/core.py
Shape
Languages
Python100%
Modules by API surface
setup.py10 symbols
interact/core.py10 symbols
interact/generic.py9 symbols
interact/stringdb.py8 symbols
interact/roc.py7 symbols
interact/nn_tree.py7 symbols
interact/embedding.py5 symbols
interact/graph.py4 symbols
interact/uniprot.py1 symbols
For agents
$ claude mcp add interact \
-- python -m otcore.mcp_server <graph>