How to Cite¶
If you like SpikeInterface, please star us on Github! giving us a star gives a measure of the level of use and interest, which goes a long way to getting funding
Please cite SpikeInterface in your papers with our eLife paper: [Buccino]
SpikeInterface stands on the shoulders of giants! Each method in SpikeInterface draws on (or directly runs) independently-created methods. Please try to reference the individual works that are important for your analysis pipeline. If you notice a missing reference, please let us know by submitting an issue on Github.
Preprocessing Module¶
If you use one of the following preprocessing methods, please cite the appropriate source:
phase_shiftorhighpass_spatial_filter[IBL]detect_bad_channels(method='coherence+psd')[IBL]common_reference[Rolston]
Motion Correction¶
If you use the correct_motion method in the preprocessing module, please cite [Garcia]
as well as the references that correspond to the preset you used:
nonrigid_fast_and_accurate[Windolf] [Varol] [Pachitariu]rigid_fastno additional citation neededkilosort_like[Pachitariu]
Sorters Module¶
If you use one of the following spike sorting algorithms (i.e. you use the run_sorter() method,
please include the appropriate citation for the sorter_name parameter you use:
Note: unless otherwise stated, the reference given is to be used for all versions of the sorter
combinato[Niediek]hdsort[Diggelmann]herdingspikes[Muthmann] [Hilgen]kilosort[Pachitariu]mountainsort[Chung]spykingcircus[Yger]wavclus[Chaure]yass[Lee]
Qualitymetrics Module¶
If you use the qualitymetrics module, i.e. you use the analyzer.compute()
or compute_quality_metrics() methods, please include the citations for the metric_names that were particularly
important for your research:
amplitude_cutoff[Hill]amplitude_median[IBL]sliding_rp_violation[IBL]drift[Siegle]isi_violation[UMS]rp_violation[Llobet]sd_ratio[Pouzat]synchrony[Grün]
If you use the qualitymetrics.pca_metrics module, i.e. you use the
compute_pc_metrics() method, please include the citations for the metric_names that were particularly
important for your research:
d_prime[Hill]isolation_distanceorl_ratio[Schmitzer-Torbert]nearest_neighborornn_isolationornn_noise_overlap[Chung] [Siegle]silhouette[Rousseeuw] [Hruschka]
Curation Module¶
If you use the get_potential_auto_merge method from the curation module, please cite [Llobet]
References¶
A novel and fully automatic spike-sorting implementation with variable number of features. 2018.
Impact of higher-order correlations on coincidence distributions of massively parallel data. 2007.
Quantitative assessment of extracellular multichannel recording quality using measures of cluster separation. Society of Neuroscience Abstract. 2005.
Methods for neuronal recording in conscious animals. IBRO Handbook Series. 1984.
Automatic post-processing and merging of multiple spike-sorting analyses with Lussac. 2022.
Spike Detection for Large Neural Populations Using High Density Multielectrode Arrays. 2015.
Using noise signature to optimize spike-sorting and to assess neuronal classification quality. 2002.
Common median referencing for improved action potential detection with multielectrode arrays. 2009.
Silhouettes: A graphical aid to the interpretation and validation of cluster analysis. 1987.