Here is a list of all related documentation pages:

How to add plumed to an MD code	Plumed ships with scripts that can be used to add it to many of the standard MD packages
A brief introduction to the plumed core	Plumed 2, unlike its predecessor plumed 1, which was written in plain C, is written in C++
Using external libraries in PLUMED	When implementing new CVs and methods you may at time find it useful to make use functionality that has been implemented in some external library (eg boost )
Creating plumed documentation	To create the plumed manual you should go to the user-doc directory and type make
Parsing functionality	By now you are probably familiar with the way that plumed2 input looks:
How to add a new collective variable	To implement a CV one you need to create a single cpp file called ColvarName.cpp in the directory src/colvar
How to add a new function	Many collective variables are a function of a number of some set of simpler collective variables
How to add a new command-line tool	To implement a command line tool you need to create a single cpp file call CLToolNAME.cpp
Implementing methods for calculating the distances between pairs of configurations	To implement a new method for calculating the distance between a pair of trajectory frames you will need to work with the PLMD::reference module
How to add a new MultiColvar	As you are no doubt aware within plumed 2 you can calculate multiple instances of a collective coorinate from a single line in the input file
Installation Layout	I write here some notes related to how plumed is installed
A brief introduction to git	Clone the github repository:
Validating syntax with plumedcheck	Here is a list of coding rules that are enforced by the plumedcheck script
How to format code properly	Since version 2.3.2, we format code using astyle
README
README
Reference for interfacing MD codes with PLUMED	Plumed.h and Plumed.c contain the external plumed interface, which is used to integrate it with MD engines
CONTRIBUTING
PULL_REQUEST_TEMPLATE
Todo List