AFNI (Analysis of Functional NeuroImages) is a leading software suite of C, Python, R programs and shell scripts primarily developed for the analysis and display of multiple MRI modalities: anatomical, functional MRI (FMRI) and diffusion weighted (DW) data. It is freely available (both as open source code and as precompiled binaries) for research purposes. The software is made to run on virtually any Unix system with X11 and Motif displays. Binary packages are provided for MacOS and Linux systems such as Fedora, CentOS/Red Hat and Ubuntu (which includes the Windows Subsystem for Linux). 

 SUMA is a program that adds cortical surface based functional imaging analysis to the AFNI suite of programs. It allows   viewing 3D cortical SUrface models, and MApping volumetric data onto them. With SUMA, AFNI can simultaneously and in real-time render Functional Imaging data in 4 modes: Slice, Graph (time series), Volume and Surface with direct links between them. It can also render tractographic reconstructions from DTI models of white matter, as well as other objects such as electrode representations.

NIfTI (Neuroimaging Informatics Technology Initiative) The primary goal of NIfTI is to provide coordinated and targeted service, training, and research to speed the development and enhance the utility of informatics tools related to neuroimaging. The National Institute of Mental Health and the National Institute of Neurological Disorders and Stroke are joint sponsors of this initiative.