impetuous-gfa 0.24.1

Impetuous Quantification, Alignments, Enrichments and Group Analysis

Simple Group Analysis

Decomposes a set of expressions into a group expression. The toolkit currently offers enrichment analysis, hierarchical enrichment analysis, PLS regression, Shape alignment or clustering as well as rudimentary factor analysis. The expression regulation can be studied via a statistical test that relates it to the observables in the journal file. The final p values are then FDR corrected and the resulting adjusted p values are produced.

Visit the active code via : https://github.com/richardtjornhammar/impetuous

Visit the published code : https://doi.org/10.5281/zenodo.2594690

Cite using : DOI: 10.5281/zenodo.2594690

Pip installation with :

pip install impetuous-gfa

Version controlled installation of the Impetuous library

The Impetuous library

In order to run these code snippets we recommend that you download the nix package manager. Nix package manager links from Oktober 2020:

https://nixos.org/download.html

$ curl -L https://nixos.org/nix/install | sh

If you cannot install it using your Wintendo then please consider installing Windows Subsystem for Linux first:

https://docs.microsoft.com/en-us/windows/wsl/install-win10

In order to run the code in this notebook you must enter a sensible working environment. Don't worry! We have created one for you. It's version controlled against python3.7 and you can get the file here:

https://github.com/richardtjornhammar/rixcfgs/blob/master/code/environments/impetuous-shell.nix

Since you have installed Nix as well as WSL, or use a Linux (NixOS) or bsd like system, you should be able to execute the following command in a termnial:

$ nix-shell impetuous-shell.nix

Now you should be able to start your jupyter notebook locally:

$ jupyter-notebook impetuous_finance.ipynb

and that's it.

Usage example 1 : elaborate informatics example

code: https://gitlab.com/stochasticdynamics/eplsmta-experiments docs: https://arxiv.org/pdf/2001.06544.pdf

Usage example 2 : simple code example

Now while in a good environment: In your Jupyter notebook or just in a dedicated file.py you can write the following:

import pandas as pd
import numpy as np

import impetuous.quantification as impq

adf = pd.read_csv( 'analytes.csv' , '\t' , index_col=0 )
jdf = pd.read_csv( 'journal.csv'  , '\t' , index_col=0 )

res_dfs = impq.run_rpls_regression ( adf , jdf , 'S ~ C(industry)' , owner_by = 'angle' )

print ( res_dfs )

Manually updated code backups for this library :

GitLab: https://gitlab.com/richardtjornhammar/impetuous CSDN: https://codechina.csdn.net/m0_52121311/impetuous