Design and algorithms

The pages in this section explain what parts of lsdtt3 do and how to use them. Each one takes a topic, such as flow routing, chi analysis or downloading data, and covers:

• the method: the equations, the algorithms, the choices made in the code, and the papers they come from;
• how to use it: which tools and parameters run it, in what order, and what the outputs mean.

Read them when you need to know why a tool gives the result it does, how to choose its settings, or what to cite.

This section is not comprehensive. It covers the parts of lsdtt3 where the method needs explaining; many tools and options have no page here. For what every tool can do, use the command-line reference: one page per tool, listing every parameter with its default and meaning. Every tool also prints the same information itself: <tool> -h lists its parameters, and <tool> -h <parameter> explains one. The design and algorithms pages are for the details behind them.

For the same analyses from Python, see the Python guides. The Python functions run the same C++ routines as the command-line tools, so the methods described here apply to both.