Code

A collection of links to code for analysis and modeling developed by members of the Center.

Calcium imaging analysis

CalmAn, a package for analysis of large-scale calcium imaging data, now maintained by members of the Flatiron Institute (see Pnevmatikakis et al. 2016, github)

CNMF-E, Constrained nonnegative matrix factorization for microendoscopic data (see Zhou et al. 2018, github)

 

Population analyses for neural recordings

Cunningham lab (github)

Tensor maximum entropy method (see Elsayed & Cunningham 2017, github)

LFADS, Latent factor analysis via dynamical systems (see Pandarinath et al. 2018, github)