Albert Cardona @albertcardona@qoto.org

To fill in my profile tags, a thread:

#TrakEM2 is open source software mostly for #connectomics (but found uses well beyond), and provides the means for both manual and automatic montaging and aligning overlapping 2D image tiles (with #SIFT features and rigid or elastic transformation models), and then reconstructing with mostly manual means–by painting with a digital brush–the volumes of structures of interest, as well as trace the branched arbors of e.g., neurons and annotate their synapses, therefore mapping a #connectome from #vEM (volume electron microscopy).

#TrakEM2 paper at https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0038011

Git repository at https://github.com/trakem2/

For 3D visualization, #TrakEM2 uses the 3D Viewer https://imagej.net/plugins/3d-viewer/

As software, #TrakEM2 runs as a plugin of #FijiSc https://fiji.sc/ and in fact motivated the creation of the #FijiSc software in the first place, to manage its many dependencies and therefore facilitate distribution to the broader #neuroscience community.

#TrakEM2 was founded in 2005, when terabyte-sized datasets were rare and considered large. The largest dataset that I've successfully managed with #TrakEM2 was about 16 TB. For larger datasets, see #CATMAID below.

Is there any setting to switch on seeing posts in all federated servers? If I visit the profile of some people in other servers, their posts often don't show. It says e.g., "23 Posts" but only 1 post is listed in their timeline.

I also see different behaviour between the website and the iOS app. For example, the website at qoto.org lets me write 65535 characters per post, whereas the app limits me to 250 or so, even if it displays longer posts just fine. Is this a setting that can be adjusted somewhere? The app seems to have few visible settings.

#mastodon @freemo

Flowers first feed pollen and nectar to wasp adults in exchange for (unwitting) pollination services. Then the fruit feeds insect larvae who, in turn, host the endoparasitoid wasp larvae.
Torymus sp. wasp as seen in the Cambridge Botanic Gardens on October 31st. http://www.inaturalist.org/observations/140710313
#wasp #wasplove #entomology #inaturalist

Love it how everyone I follow or follows me is a scientist, a former scientist (once a scientist, always a scientist) or is interested in science. So far no media personalities, no politicians. And lacking promoted posts—ads or otherwise—the signal to noise ratio went through the roof. After all, “science is the only news”, as the saying goes.

An extremely off season mining bee screams #climatechange like few other bioindicators. This British Andrena sp. #nativebee most likely ought to have been dead since late August, yet here we are, October 31st, Halloween. #iNaturalist #entomology http://www.inaturalist.org/observations/140710447

And found John Tuthill too — welcome! @tuthill

Found Scott Waddell — welcome! @scottishwaddell

If only we used masks all the time in public: “A jet airliner with 54 persons aboard was delayed on the ground for three hours because of engine failure during a takeoff attempt. Most passengers stayed on the airplane during the delay. Within 72 hours, 72 per cent of the passengers became ill” … with flu. In 1979. We’ve had so much time.

“An outbreak of influenza aboard a commercial airliner”
M R Moser et al. Am J Epidemiol. 1979 Jul. https://pubmed.ncbi.nlm.nih.gov/463858/

Above, my #introduction of interests. Here, who I am, what I do: a neuroscientist at the #MRCLMB and University of Cambridge, UK, studying the neural circuit basis of behavior, originally in #Drosophila but now also in #cephalopods (#pygmysquid #Idiosepius), the lancelet #Amphioxus and other animals. Our main approach: whole brain #connectomics with #vEM (volume electron microscopy) as the basis for computational modeling to guide neuronal activity perturbation and monitoring experiments with #optogenetics and #electrophysiology (#ephys for short).
Once upon a time I founded the #ImageJ -based #TrakEM2 software for image registration and neuronal arbor reconstruction and annotation, which spurred founding the #FijiSc (https://fiji.sc) image processing software, and later the #CATMAID web-based software for #connectomics.
Always open to inquires from prospective students and postdocs, and collaborations.

Hello world! Here to (re)build a #neuroscience peer network.

#Drosophila #zebrafish #mouse #cephalopods

Also interested in #entomology #wasplove #nativebee #macrophotography and many more.

My website: https://albert.rierol.net

My #iNaturalist: https://www.inaturalist.org/lifelists/albertcardona?view=tree&details_view=observations