APECS - FTP site for Ian McConnell's MAPLE programs.
» Code to Compute Heights on Elliptic Curves - Magma implementation of Silverman's algorithm to compute the canonical height on an elliptic curve over a number field or function field, by Martine Girard.
» EIS - Software for computing Fourier coefficients of Eisenstein series attached to lattices by M. Kuss and J. Bruinier. Binaries for x86-Linux.
» Ellipsa - Includes Primo, an implementation of ECPP, and CPG, class polynomial builder.
» Heegner Tools - Peter Green's Heegner Points package. Requires Linux and Pari/GP 2.1.1 or higher.
» Modular Forms Software - HECKE can be used to compute basis of q-expansions and Hecke operators on fairly general spaces of modular forms.
» Modular Quaternion Groups - Fundamental domains for Shimura curves, written in GAP. Documented with description of algorithms used and program structure, input and output. Results for quaternion algebras with discriminant up to 100.
» Periods of Hilbert Modular Forms - A package of PARI programs (v.2.1.1 or higher) for calculations described in "Periods of Hilbert modular forms and rational points on elliptic curves" by H. Darmon and A. Logan.