Department I Hallermann » Open Source

Open source

We have signed an open letter committing to open source in neuroscience (see also Gleeson et al., Neuron, 96:964-965 ). Below we provide links to available code.

  • Ritzau-Jost A, Tsintsadze T, Krueger M, Ader J, Bechmann I, Eilers J, Barbour B, Smith SM, Hallermann S (2021) Large, stable spikes exhibit differential broadening in excitatory and inhibitory neocortical boutons. Cell Rep 34:108612
    At github we provide the corresponding Python code.
  • Straub I, Witter L, Eshra A, Hoidis M, Byczkowicz N, Maas S, Delvendahl I, Dorgans K, Savier E, Bechmann I, Krueger M, Isope P, Hallermann S (2020) Gradients in the mammalian cerebellar cortex enable Fourier-like transformation and improve storing capacity. Elife 9. pii:e51771
    At github we provide the corresponding Matlab code.
  • Byczkowicz N, Eshra A, Montanaro J, Trevisiol A, Hirrlinger J, Kole MH, Shigemoto R, Hallermann S (2019) HCN channel-mediated neuromodulation can control action potential velocity and fidelity in central axons. Elife 8. pii:e42766
    At github we provide the corresponding Neuron code.
  • Ritzau-Jost A, Jablonski L, Viotti J, Lipstein N, Eilers J, Hallermann S (2018) Apparent calcium dependence of vesicle recruitment. J Physiol 596:4693-4707
    At github we provide the corresponding C++ and CalC code.
  • Kole MH, Hallermann S, Stuart GJ  (2006) Single Ih channels in pyramidal neuron dendrites: properties, distribution, and impact on action potential output. J Neurosci 26:1677-1687
    At ModelDB we provide NEURON code to reproduce the modelling with stochastic gating of HCN channels.
  • Hallermann S, de Kock CP, Stuart GJ, Kole MH (2012) State and location dependence of action potential metabolic cost in cortical pyramidal neurons. Nat Neurosci. 15:1007-1014
    At ModelDB we provide NEURON code to reproduce the modelling results and to calculate the required ATP molecules per cellular compartment.