Lukas Heumos

Implement all functions as CLI commands

1

We already offer a CLI, but didn't add any functions of the API as commands yet. This is required to write neat Nextflow/Snakemake pipelines eventually.

### Description of feature As soon as @xinyuejohn knows more - [ ] MIMIC-IV sample - [ ] MIMIC-III full - [ ] MIMIC-IV full

AnnData warnings

3

There's quite a few of them, especially when the tests are executed. Let's collect them: ``` /home/zeth/PycharmProjects/ehrapy/ehrapy/preprocessing/encoding/_encode.py:324: FutureWarning: X.dtype being converted to np.float32 from object. In the next version of...

Implement forward imputation for single patients

2

### Description of feature By Karsten: We should ensure that we only impute into the future with past values. Think that this must be on patient by patient case

Create conda package

1

Probably something that we should try at some point... conda-forge I guess

Plan is now to reimplement timeax in python

Instructive tutorial and discussion of feature type inference, encoding, and missingness of data

3

We are making many assumptions and implemented quite a lot of edge cases for e.g. encoding and imputation. We should extend the contributors guide by documenting these.

Add doc landing page

1

Let's add a nice landing page to the Sphinx docs for a nicer experience.

Current interface  Might be possible to make especially the selection of T and E easier.

exec: Exec format error

3

Hi, I'm trying to make my jar executable, by prepending a launch script to it, like specified in the README of this project. I've added the following lines to my...