Plotting my research notes with NetworkX and sigma.js

Posted on Sat 21 September 2019 in data science • Tagged with research notes, sigma.js, network science, plotting, data science, wordpress, xml, rss

Visualizing the first four years of my PhD through a research notes graph


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OpenEphys on the Raspberry Pi 4

Posted on Sat 21 September 2019 in neuroscience • Tagged with raspberry pi, open ephys, neuroscience, neural recordings, open science

Instructions for how I set up Open Ephys on the Raspberry Pi 4 Model B


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Parallels in the sequential organization of birdsong and human speech

Posted on Sat 17 August 2019 in Birdsong • Tagged with birdsong, language, speech, finch, starling, vireo, thrasher, syntax, phonology

We released a new paper about the sequential organization of speech and birdsong in Nature Communications. Our paper models sequential mutual information of both signals, and shows similarities in the long- and short-range organization between birdsong and speech.


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Making an HTML CV in Python using Jinja

Posted on Fri 07 June 2019 in python • Tagged with python, cv, curriculum vitae, jinja, html, css, json

An quick explanation of how to generate a CV using Python and Jinja


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Making Jupyter notebooks Google Colab ready

Posted on Fri 07 June 2019 in python • Tagged with jupyter, python, google colab

An example of how to run Jupyter notebooks on Google Colab even when they require additional dependencies.


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Libtfr Time Frequency Reassigned Spectrogram example

Posted on Thu 23 May 2019 in Signal Processing • Tagged with spectrograms, python, jupyter

A quick example of libtfr time frequency reassigned spectrograms applied to speech


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Converting from HDF5 to tfrecord and reading tfrecords into tensorflow

Posted on Mon 29 April 2019 in Tensorflow • Tagged with tensorflow hdf5, tfrecord, convert

How to convert hdf5 files to tfrecord files, and read them into tensorflow.


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CCN 2018 Conference presentation: Learned context dependent categorical perception in a songbird

Posted on Tue 19 March 2019 in birdsong • Tagged with birdsong, machine learning, variational autoencoder, context, category learning

My conference poster and oral presentation from CCN 2018 on the context dependent categorical perception behavior I designed for songbirds


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Songbird Data Science Workshop 2018: AVGN video

Posted on Tue 19 March 2019 in birdsong • Tagged with birdsong, machine learning, variational autoencoder, UMAP, GAIA, GAN, unsupervised learning

My presentation at the Songbird Data Science Workshop at Birdsong 2018


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birdbrain: a library for viewing songbird (and bat) brain atlases

Posted on Fri 15 March 2019 in Birdsong • Tagged with MRI, atlas, songbird, canary, zebra finch, mustached bat, european starling, pigeon, brain, python

A python package for use with the songbird brain atlases focusing on stereotactic localization of the European starling, Canary, Zebra finch, Pigeon, and Mustached bat.


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Live behavioral updates on Gentnerlab Website

Posted on Mon 11 February 2019 in Birdsong • Tagged with pyoperant, RPiOperant, operant conditioning, behavior

Live plotting of PyOperant behaviors


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Generative Adversarial Interpolative Autoencoding (GAIA)

Posted on Sun 07 October 2018 in Machine Learning • Tagged with tensorflow, gan, adversarial, convex, autoencoder, GAIA

A novel interpolation-based Generative Adversarial Network / Autoencoder written in Tensorflow


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Noise reduction using spectral gating in python

Posted on Sat 07 July 2018 in Signal Processing • Tagged with spectrograms, python, jupyter

A quick implementation of a noise reduction algorithm using spectral gating in python.


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Spectrograms, MFCCs, and Inversion in Python

Posted on Sat 07 July 2018 in Signal Processing • Tagged with griffin-lim, spectrogram, inversion, python, audio

Code for creating, and inverting, spectrograms and MFCCs from wav files in python.


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Variational Autoencoder in Tensorflow (Jupyter Notebook)

Posted on Sat 07 July 2018 in Machine Learning • Tagged with tensorflow, vae, variational autoencoder, python, autoencoder

A simple quick Variational Autoencoder in Tensorflow


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