#freeandopenscience — Public Fediverse posts
Live and recent posts from across the Fediverse tagged #freeandopenscience, aggregated by home.social.
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Supervised ML without manual annotation? Makes sense for 3D data. But how? See our 3D UNet implementation for small animal brain masking at today's #emim2021 poster session w/ @hendrik_klug
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Our newest article on preclinical MRI preprocessing — don't use repurposed human workflows, use native workflows for the species you're working with, and get better results :)
https://doi.org/10.1016/j.neuroimage.2021.118386
#fMRI #neuroimaging #freeandopenscience #Python #FOSS #openscience #preclinical
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Poster pitch for SAMRI — the foremost collection of Small Animal MRI Workflows #EMIM2020
#DataScience #ScientificSoftware #FOSS #freeandopenscience #openscience #BIDS #preclinical #brainimaging #neuroscience
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Whole-brain map of VTA dopaminergic stilumation in the mouse, as seen at #ISMRM2020
Analysis and data fully open source and accessible for hacking/reproduction: https://bitbucket.org/TheChymera/opfvta/src
#freeandopenscience #opendata #python #linux #neuroscience #SAMRI
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Brief 4' command-line demo for automatic Bruker Paravision to BIDS repositing.
#neuroscience #freeandopenscience #FOSS #Python #linux #bash #datascience #neuroinformatics #preclinical #fMRI #mouseMRI #neuroimaging #samri #bru2bids
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Automatically reposit Bruker ParaVision data into the BIDS format.
Video summary of our newest neuroimaging methods article.
#fMRI #FOSS #scientificsoftware #Python #Linux #freeandopenscience #reproducibility #videoabstract #sciencevideo
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Our newest preprint on dopaminergic fMRI mapping in the mouse:
https://www.biorxiv.org/content/10.1101/2020.04.03.023648v1The source code is public ( https://bitbucket.org/TheChymera/opfvta ) and contains volumetric maps in NIfTI format registered to a standard space. You can just download and reuse them!
#neuroscience #preclinicalMRI #foss #freeandopenscience #openscience
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Improved neuroscience support for the command line!
#freeandopenscience #openneuroscience #bash #linux #foss #suckless
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Poster From last week's impromptu conference:
https://zenodo.org/record/3477675
#freeandopenscience #pythonTeX #RepSeP #reproducibility #gentoo #linux #Python #FOSS #OpenData #reproduciblescience
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So I've been notified two days in advance that I'm giving a pitch and presenting a poster. Guess it's time to stock up on some caffeine..
Also, since I'm doing this, join the event!
https://drive.google.com/file/d/1MOvnImPQoPo76-i_mtwb-D0GNth4Qui9/view
#freeandopenscience #earlycareerresearcher #reproduciblepublishing
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The newest revision of our small animal brain registration pipeline and benchmarking article, as accepted for review <3
https://www.biorxiv.org/content/10.1101/619650v2
#freeandopenscience #freeanimalresearch #neuroscience #fMRI #preprocessing #smallanmimalMRI #FOSS #SAMRI #ANTs #Python #RepSeP
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#brainhackzurich city stroll. Join us tomorrow 19:30 at Central for our pub crawl event: the legendary Zurich Brain Crawl.
#openscience #conference #hackathlon #neuroscience #freeandopenscience #scientificsoftware
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Doctor of Science, accomplished
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by developing a new assay for monoaminergic function and psychopharmacological profiling in vivo – and the infrastructure to support it.#neuroscience #fMRI #freeanimalresearch #freeandopenscience #FOSS #Gentoo #Linux #optogenetics #ETH #ETHZurich #neuroimaging #biomedical
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Our newest preprint on small animal MRI data standardizarion. Convert Bruker to BIDS via SAMRI!
#freeandopenscience #foss #openworkflows #datascience #neuroscience
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There is still hope in the world.
#matlab #python #scipy #scikits #FOSS #scientificsoftware #freeandopenscience
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The fantasy of “safety” is literally killing us.
#freeandopenscience #pharmacology #liberty #technology #biomedical
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Our newest manuscript --- improving transparency, inter-study comparability, and robustness of preclinical MRI registration --- is out. Get it while it's hot!
#freeandopenscience #nipype #samri #fmri #datascience #freeanimalresearch #neuroscience
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Our newest manuscript --- improving transparency, inter-study comparability, and robustness of preclinical MRI registration --- is out. Get it while it's hot!
#freeandopenscience #nipype #samri #fmri #datascience #freeanimalresearch #neuroscience
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Our newest manuscript --- improving transparency, inter-study comparability, and robustness of preclinical MRI registration --- is out. Get it while it's hot!
#freeandopenscience #nipype #samri #fmri #datascience #freeanimalresearch #neuroscience
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Our newest manuscript --- improving transparency, inter-study comparability, and robustness of preclinical MRI registration --- is out. Get it while it's hot!
#freeandopenscience #nipype #samri #fmri #datascience #freeanimalresearch #neuroscience
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One of my favorite collaborators recently took me on an excursion into the world of angiogenesis. It turned out really nicely, with beautiful figures in what I now realize are the Romanian national colors :D
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fMRI preprocessing and data analysis intro, using animal data and cutting-edge software, including #RepSeP, #SAMRI, #nilearn, and #nipype.
#ethzurich #zurich #freeandopenscience #sciencecommunication #freeanimalresearch #openeducation
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Wrapping up two days of neuroscientific hacking in our second #brainhackzurich venue at the USZ Unispital Thanks everybody for being amazing!
#freeandopenscience #hackathon #swiss #conference #Python #FOSS #sciencecommunication
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Get ready for the upcoming #brainhackzurich, Switzerland's foremost hackathlon for reproducible, transparent, and Pythonic neuroscience! #freeandopenscience https://brainhack-zurich.github.io/