Cowfish is an Aquarium cytometry results analyzing software package written in Python.
git clone https://github.com/klavinslab/cowfish.git
cd cowfish
sudo pip install .
from cowfish import Cowfish
co = Cowfish(aquarium_url/api, aquarium_login, aquarium_api_key, local_folder_path_to_store_downloads)
An example:
df_singlets = co.cytometry_results_summary([job_id_1,job_id_2,job_id_3], ploidy="haploid", only='singlets')
This will process the cytometry results in job_id_1, job_id_2, and job_id_3, pass through yeast haploid and singlets gate and return a Pandas dataframe (a table like data structure but much more powerful thanks to Pandas) that summarizing all the results with time, sample_name, fluorescence value, concentration.