TARGENE / targene-pipeline

Nextflow pipeline for Targeted-Learning of genetic effects
MIT License
11 stars 0 forks source link

update docs #184

Open roskamsh opened 3 months ago

roskamsh commented 3 months ago

The purpose of this branch is to update the documentation with some current recommendations for estimators to use. These cover two scenarios - (1) ATE estimation and (2) IATE estimation. This is with the caveat that these are likely to be amended un a future release of Targene.

olivierlabayle commented 3 months ago

Thank you @roskamsh, I've added a few comments. Also, I think we should drop the following part:

" There are two main ways to define targeted estimators, from a predefined configuration or from a custom file.

Predefined estimators

A set of predefined estimators is readily available and can be accessed by using the configuration's name as the ESTIMATOR_FILE parameter. For instance, we provide the following:

To see what the estimand files for these examples look like, please refer to the TargetedEstimation.jl package, located here: https://github.com/TARGENE/TargetedEstimation.jl/tree/main/estimators-configs.

All using TMLE as the meta statistical inference method. While these should cover most use cases, it may be useful to define a custom estimation strategy. This can be achieved by writing a small Julia file described below. "

since this is not working atm... Unless you are willing to give it a go :)