tierpsytools

tierpsytools is a Python library for dealing with metadata in worm screening experiments and tierpsy feature processing.

Installation

It is recommended to create an environmemt to install tierpsytools in. In conda you can create an environmnet called tierpsytools with:

conda create -n tierpsytools

Activate the environment with:

source activate tierpsytools

To install tierpsytools clone the repository from github:

git clone https://github.com/Tierpsy/tierpsy-tools-python.git

Go in the tierpsy-tools-python directory:

cd tierpsy-tools-python

Firt, install the dependences with:

conda install --file requirements.txt
pip install imgstore

Then install the tierpsytools package with:

pip install -e .

Usage

You can import tierpsytools and use modules and functions as in:

import tierpsytools

filtered_features = tierpsytools.filter_features.drop_ventrally_signed(features)

or import modules and functions from tierpsytools as in:

from tierpsytools.filter_features import drop_ventrally_signed

filtered_features = drop_ventrally_signed(features)