Polish the README.md

[gregorgorjanc]

List the programs at the end and link to their repos.

Add some that are missing? AlphaCall, etc.?

https://bitbucket.org/hickeyjohnteam/alphacall
https://bitbucket.org/hickeyjohnteam/alphafamily
https://bitbucket.org/hickeyjohnteam/check_pedigree
https://bitbucket.org/hickeyjohnteam/pedigreelongreads