*) TAKE NOTE THAT THE OLD ALGORITHM CALLED DISTANCE GEOMETRY EXISTS. IT CAN BE EMPLOYED TO ANY DIMENSIONAL DATA. HERE YOU FIND A SVD BASED ANALOG OF THAT OLD METHOD.
*) PDIST REALLY LIKES TO COMPUTE SQUARE ROOT OF THINGS SO WE SQUARE THE RESULT IF IT IS NOT SQUARED.
*) IN SHORT THE DISTANCE MATRIX IN THE CONVERSION ROUTINE BACK TO ABSOLUTE COORDINATES USES R2 DISTANCES.
This is a cutoff based clustering algorithm. The intended use is to supply a distance matrix and a cutoff value (then becomes symmetric positive definite). For a small distance cutoff, you should see all the parts of the system and for a large distance cutoff, you should see the entire system. It has been employed for statistical analysis work as well as the original application where it was employed to segment molecular systems.
"""
# PYTHON ADAPTATION OF MY C++ CODE THAT CAN BE FOUND IN
Description: # A Statistical Learning library for Humans
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:
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:
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: