package

• Free software: MIT license

Together with the autoCorrection package you will get

'tensorflow', 'keras', 'numpy', 'kopt', 'scipy', 'h5py', 'sklearn', 'pandas', 'statsmodels', 'pytest'

packages automatically installed, if not present.

If you don't wannt to install these packages globally, please use virtual environment.

If you have problems with virtualenv, installing using conda may help:

(Installation of conda: https://conda.io/docs/user-guide/install/index.html)

Make sure you are using python 3.

conda create -n mypyth3 python=3.6

source activate mypyth3

conda install virtualenv

activate new environment in active python 3 environment:

virtualenv env-with-autoCorrection

source env-with-autoCorrection/bin/activate

Check if you are still using python 3:

python --version

pip install autoCorrection

deactivate

#in python:
python
import autoCorrection
import numpy as np
counts = np.random.negative_binomial(n = 20, p=0.2, size = (10,8))
sf = np.ones((10,8))
corrector = autoCorrection.correctors.AECorrector()
c = corrector.correct(counts = counts, size_factors = sf)

#in R:
library(reticulate)
autoCorrection <- import("autoCorrection")
corrected <- autoCorrection$correctors$AECorrector(model_name, model_directory)$correct(COUNTS, SIZE_FACTORS, only_predict=FALSE)

https://i12g-gagneurweb.in.tum.de/public/docs/autocorrection/