Abstract Machine and deep learning methods, today's core of artificial intelligence, have
been applied with increasing success and impact in many commercial and research …

Highlights•There are several promising techniques for processing calcium imaging
data.•Comparing the accuracy of these methods is difficult, due to lack of ground truth.•The …

Advances in fluorescence microscopy enable monitoring larger brain areas in-vivo with finer
time resolution. The resulting data rates require reproducible analysis pipelines that are …

Mechanistic modeling in neuroscience aims to explain observed phenomena in terms of
underlying causes. However, determining which model parameters agree with complex and …

Quantification and detection of the hierarchical organization of behavior is a major challenge
in neuroscience. Recent advances in markerless pose estimation enable the visualization of …

In vivo calcium imaging using a 1-photon-based miniscope and a microendoscopic lens
enables studies of neural activities in freely behaving animals. However, the high and …

Highlights•Artificial and biological neural networks can be analyzed using similar
methods.•Neural analysis has revealed similarities between the representations in artificial …

In recent years, two-photon calcium imaging has become a standard tool to probe the
function of neural circuits and to study computations in neuronal populations. However, the …

Calcium imaging is a popular tool among neuroscientists because of its capability to monitor
in vivo large neural populations across weeks with single neuron and single spike …

Decoding behavior, perception or cognitive state directly from neural signals is critical for
brain–computer interface research and an important tool for systems neuroscience. In the …