getting started

[Alex A]

Hello all, 

I've recently install bio++ and am interested in use bpp-phy to make phylogenetic trees. Though I am very new to C++ I am eager to include it in my project. How would I get started with the library and what are the right commands to start using the scripts and are there any tutorials?  

Kind regards, 

Alex 

[Alex A]

 I am trying to run some of the example scripts but I do not understand if I am launching them correctly. Is it possible to launch HMM_ML.bpp by simple typing g++ HMM_ML.bpp. Or is there another way? 

[Julien Y. Dutheil]

Hi Alex,

First, I have to apologize as the current status of Bio++ is a bit messy: we are in the process of releasing version 3.00, featuring a major change in the phylogenetic classes.

While the documentation between v2 and v3 is still a bit mixed up, I would suggest to start with v3, as the old v2 api will at some point not be maintained anymore.

The new website is here: https://biopp.github.io/, and some documentation is available on the new wiki (see link on the webpage).

Now, there seems to be a confusion: the bpp files are not C++ files. These are options for the programs from the BppSuite software, in particular bppML. This software allows using some of the features of the libraries (notably model fitting), without the need of coding in C++. If you would like to see some code examples, you may have a look at the bpp-seq-example and bpp-phyl-example repositories on github.

Hope this helps a bit...

Julien.