References
References
Methods and formats cited on this site. Each entry was checked against PubMed, the publisher or an index before it was added; references that could not be checked were left out.
- Nicholson C, Freeman JA (1975). Theory of current source-density analysis and determination of conductivity tensor for anuran cerebellum. J Neurophysiol 38(2):356–368. doi:10.1152/jn.1975.38.2.356
Cited on: Electrophysiology - Mitzdorf U (1985). Current source-density method and application in cat cerebral cortex: investigation of evoked potentials and EEG phenomena. Physiol Rev 65(1):37–100. doi:10.1152/physrev.1985.65.1.37
Cited on: Electrophysiology - Kaiser JF (1990). On a simple algorithm to calculate the ‘energy’ of a signal. Proc. IEEE ICASSP-90, vol. 1, pp. 381–384. doi:10.1109/ICASSP.1990.115702
Cited on: Electrophysiology - Mukhopadhyay S, Ray GC (1998). A new interpretation of nonlinear energy operator and its efficacy in spike detection. IEEE Trans Biomed Eng 45(2):180–187. doi:10.1109/10.661266
Cited on: Electrophysiology - Quian Quiroga R, Nadasdy Z, Ben-Shaul Y (2004). Unsupervised spike detection and sorting with wavelets and superparamagnetic clustering. Neural Comput 16(8):1661–1687. doi:10.1162/089976604774201631
Cited on: Electrophysiology - Rousseeuw PJ (1987). Silhouettes: a graphical aid to the interpretation and validation of cluster analysis. J Comput Appl Math 20:53–65. doi:10.1016/0377-0427(87)90125-7
Cited on: Electrophysiology - Ester M, Kriegel H-P, Sander J, Xu X (1996). A density-based algorithm for discovering clusters in large spatial databases with noise. Proc. 2nd Int. Conf. on Knowledge Discovery and Data Mining (KDD-96), Portland, OR, pp. 226–231. AAAI Press. AAAI proceedings PDF
Cited on: Electrophysiology - Hill DN, Mehta SB, Kleinfeld D (2011). Quality metrics to accompany spike sorting of extracellular signals. J Neurosci 31(24):8699–8705. doi:10.1523/JNEUROSCI.0971-11.2011
Cited on: Electrophysiology - Kleinfeld D, Mitra PP, Helmchen F, Denk W (1998). Fluctuations and stimulus-induced changes in blood flow observed in individual capillaries in layers 2 through 4 of rat neocortex. Proc Natl Acad Sci USA 95(26):15741–15746. doi:10.1073/pnas.95.26.15741
Cited on: Imaging - Grienberger C, Konnerth A (2012). Imaging calcium in neurons. Neuron 73(5):862–885. doi:10.1016/j.neuron.2012.02.011
Cited on: Imaging - Bonner R, Nossal R (1981). Model for laser Doppler measurements of blood flow in tissue. Appl Opt 20(12):2097–2107. doi:10.1364/AO.20.002097
Cited on: Laser Doppler flowmetry - Boynton GM, Engel SA, Glover GH, Heeger DJ (1996). Linear systems analysis of functional magnetic resonance imaging in human V1. J Neurosci 16(13):4207–4221. doi:10.1523/JNEUROSCI.16-13-04207.1996
Cited on: Demo data - Welch PD (1967). The use of fast Fourier transform for the estimation of power spectra: a method based on time averaging over short, modified periodograms. IEEE Trans Audio Electroacoust 15(2):70–73. doi:10.1109/TAU.1967.1161901
Cited on: Electrophysiology - Welch BL (1947). The generalization of ‘Student’s’ problem when several different population variances are involved. Biometrika 34(1–2):28–35. doi:10.1093/biomet/34.1-2.28
Cited on: Response features and statistics - Kramer CY (1956). Extension of multiple range tests to group means with unequal numbers of replications. Biometrics 12(3):307–310. doi:10.2307/3001469
Cited on: Response features and statistics - Wilcoxon F (1945). Individual comparisons by ranking methods. Biometrics Bulletin 1(6):80–83. doi:10.2307/3001968
Cited on: Response features and statistics - Mann HB, Whitney DR (1947). On a test of whether one of two random variables is stochastically larger than the other. Ann Math Stat 18(1):50–60. doi:10.1214/aoms/1177730491
Cited on: Response features and statistics - Kruskal WH, Wallis WA (1952). Use of ranks in one-criterion variance analysis. J Am Stat Assoc 47(260):583–621. doi:10.1080/01621459.1952.10483441
Cited on: Response features and statistics - Butterworth S (1930). On the theory of filter amplifiers. Experimental Wireless and the Wireless Engineer 7:536–541.
Cited on: Laser Doppler flowmetry - Okabe M, Ito K (2008). Color Universal Design (CUD): how to make figures and presentations that are friendly to colorblind people. Web page (first published 2002). jfly.uni-koeln.de/color
Cited on: Response features and statistics - Rübel O, Tritt A, Ly R, Dichter BK, Ghosh S, Niu L, Baker P, Soltesz I, Ng L, Svoboda K, Frank L, Bouchard KE (2022). The Neurodata Without Borders ecosystem for neurophysiological data science. eLife 11:e78362. doi:10.7554/eLife.78362
Cited on: File formats - Intan Technologies. RHD2000 Application Note: Data File Formats. Technical documentation. intantech.com
Cited on: File formats - Open Ephys. Binary Format. Open Ephys GUI documentation. open-ephys.github.io
Cited on: File formats - Otsu N (1979). A threshold selection method from gray-level histograms. IEEE Trans Syst Man Cybern 9(1):62–66. doi:10.1109/TSMC.1979.4310076
Cited on: Imaging - Pettersen KH, Devor A, Ulbert I, Dale AM, Einevoll GT (2006). Current-source density estimation based on inversion of electrostatic forward solution: effects of finite extent of neuronal activity and conductivity discontinuities. J Neurosci Methods 154(1–2):116–133. doi:10.1016/j.jneumeth.2005.12.005
Cited on: Electrophysiology - Potworowski J, Jakuczun W, Łęski S, Wójcik D (2012). Kernel current source density method. Neural Comput 24(2):541–575. doi:10.1162/NECO_a_00236
Cited on: Electrophysiology - Mauchly JW (1940). Significance test for sphericity of a normal n-variate distribution. Ann Math Stat 11(2):204–209. doi:10.1214/aoms/1177731915
Cited on: Response features and statistics - Greenhouse SW, Geisser S (1959). On methods in the analysis of profile data. Psychometrika 24(2):95–112. doi:10.1007/BF02289823
Cited on: Response features and statistics - Huynh H, Feldt LS (1976). Estimation of the Box correction for degrees of freedom from sample data in randomized block and split-plot designs. J Educ Stat 1(1):69–82. doi:10.3102/10769986001001069
Cited on: Response features and statistics - Holm S (1979). A simple sequentially rejective multiple test procedure. Scand J Stat 6(2):65–70. JSTOR 4615733
Cited on: Response features and statistics - Friedman M (1937). The use of ranks to avoid the assumption of normality implicit in the analysis of variance. J Am Stat Assoc 32(200):675–701. doi:10.1080/01621459.1937.10503522
Cited on: Response features and statistics - Briers JD, Webster S (1996). Laser speckle contrast analysis (LASCA): a nonscanning, full-field technique for monitoring capillary blood flow. J Biomed Opt 1(2):174–179. doi:10.1117/12.231359
Cited on: Laser speckle flowmetry - Boas DA, Dunn AK (2010). Laser speckle contrast imaging in biomedical optics. J Biomed Opt 15(1):011109. doi:10.1117/1.3285504
Cited on: Laser speckle flowmetry, Demo data - Bandyopadhyay R, Gittings AS, Suh SS, Dixon PK, Durian DJ (2005). Speckle-visibility spectroscopy: a tool to study time-varying dynamics. Rev Sci Instrum 76(9):093110. doi:10.1063/1.2037987
Cited on: Laser speckle flowmetry, Demo data - Cheng H, Luo Q, Zeng S, Chen S, Cen J, Gong H (2003). Modified laser speckle imaging method with improved spatial resolution. J Biomed Opt 8(3):559–564. doi:10.1117/1.1578089
Cited on: Laser speckle flowmetry - Widmann A, Schröger E, Maess B (2015). Digital filter design for electrophysiological data – a practical approach. J Neurosci Methods 250:34–46. doi:10.1016/j.jneumeth.2014.08.002
Cited on: EEG - Oostenveld R, Praamstra P (2001). The five percent electrode system for high-resolution EEG and ERP measurements. Clin Neurophysiol 112(4):713–719. doi:10.1016/s1388-2457(00)00527-7
Cited on: EEG - Jurcak V, Tsuzuki D, Dan I (2007). 10/20, 10/10, and 10/5 systems revisited: their validity as relative head-surface-based positioning systems. NeuroImage 34(4):1600–1611. doi:10.1016/j.neuroimage.2006.09.024
Cited on: EEG - Perrin F, Pernier J, Bertrand O, Echallier JF (1989). Spherical splines for scalp potential and current density mapping. Electroencephalogr Clin Neurophysiol 72(2):184–187. doi:10.1016/0013-4694(89)90180-6. Corrigendum (1990): Electroencephalogr Clin Neurophysiol 76(6):565–566. doi:10.1016/0013-4694(90)90009-9
Cited on: EEG - Duchon J (1977). Splines minimizing rotation-invariant semi-norms in Sobolev spaces. In: Schempp W, Zeller K (eds) Constructive Theory of Functions of Several Variables. Lecture Notes in Mathematics 571, pp. 85–100. Springer, Berlin. doi:10.1007/BFb0086566
Cited on: EEG - Makeig S (1993). Auditory event-related dynamics of the EEG spectrum and effects of exposure to tones. Electroencephalogr Clin Neurophysiol 86(4):283–293. doi:10.1016/0013-4694(93)90110-h
Cited on: EEG - Tallon-Baudry C, Bertrand O, Delpuech C, Pernier J (1996). Stimulus specificity of phase-locked and non-phase-locked 40 Hz visual responses in human. J Neurosci 16(13):4240–4249. doi:10.1523/JNEUROSCI.16-13-04240.1996
Cited on: EEG - Pfurtscheller G, Lopes da Silva FH (1999). Event-related EEG/MEG synchronization and desynchronization: basic principles. Clin Neurophysiol 110(11):1842–1857. doi:10.1016/s1388-2457(99)00141-8
Cited on: EEG - Kuglin CD, Hines DC (1975). The phase correlation image alignment method. Proc. IEEE International Conference on Cybernetics and Society, pp. 163–165.
Cited on: Imaging - Hampel FR (1974). The influence curve and its role in robust estimation. J Am Stat Assoc 69(346):383–393. doi:10.1080/01621459.1974.10482962
Cited on: Imaging - Pearson RK, Neuvo Y, Astola J, Gabbouj M (2016). Generalized Hampel filters. EURASIP J Adv Signal Process 2016:87. doi:10.1186/s13634-016-0383-6
Cited on: Imaging - Smith SL, Häusser M (2010). Parallel processing of visual space by neighboring neurons in mouse visual cortex. Nat Neurosci 13(9):1144–1149. doi:10.1038/nn.2620
Cited on: Imaging
A few methods in the toolbox still have no citation (for example the studentized-range integration, the rank-biserial correlation and the ITPC chance level); adding verified references is an open item in the roadmap.