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I work as a research software engineer in the Drosophila Connectomics Group at the University of Cambridge. I'm interested in neuroscience and machine learning, particularly decision making (of humans, animals and machines). As a Software Sustainability Institute Fellow and Cambridge Data Champion, I advocate for open science, by promoting good coding practices and contributing to open source software.
Some projects I worked on include: brain computer-interfaces, psychophysics, brain functional connectivity, natural language processing, R Shiny packages and artificial neural networks.
Open source software for automatic subregional assessment of knee cartilage degradation using quantitative T2 relaxometry and deep learning | Thomas KA, Krzemiński D, Kidziński Ł, Paul R, Rubin EB, Halilaj E, Black MS, Chaudhari A, Gold GE, Delp SL (2021) Cartilage
Energy landscape of resting magnetoencephalography reveals fronto-parietal network impairments in epilepsy | Krzemiński D, Masuda N, Hamandi K, Singh KD, Routley B, Zhang J (2020) Network Neuroscience
A spiking neuron model of inferential decision making: Urgency, uncertainty, and the speed-accuracy tradeoff | Duggins P, Krzemiński D, Eliasmith C, Wichary S (2020) 42nd Cognitive Science Annual Conference
Helmholtz principle on word embeddings for automatic document segmentation | Krzemiński D, Balinsky H, Balinsky A (2018) 18th ACM Symposium on Document Engineering
Breakdown of long-range temporal correlations in brain oscillations during general anesthesia | Krzemiński D, Kamiński M, Marchewka A, Bola M (2017) Neuroimage
Not so artificial neurons [only PL] - article in Polish popular science magazine Delta; 2018
Internationalization of shiny apps has never been easier - 2018
TODOr - addin to RStudio, which helps discover all TODO places in the RStudio (rewarded as an addin of the day by RStudio).
Websites for Health Assesment Tool - provides users with a ranking of online medical information sources credibility. Created at NHS HackDay 2020 - 3rd place in a community vote. Chrome extension available to download from the Chrome store. Also, see sister project: AuthentiSci.
ARmadillo - augmented reality 3D MRI data visualization project, created at OHBM Hackathon 2018 in Singapore.
DFA python - a simple implementation of Detrended Fluctuation Analysis algorithm in python.
ConnectiviPy - Google Summer of Code 2016 project. From scratch implementation of a Python module with various brain connectivity estimators.
niftytorchprep - CLI for preparing neuroimaging data from BIDS format to train/test/validation structure for deep-learning training in NiftyTorch.
Contributions to open source packages: sklearn, shiny.semantic, shiny.collections, shiny.i18n, semantic.dashboard, mljar, brian2, mne-python and more...
Non-exhaustive list of my public presentations.
Scientific conferences:
SfN 2022 (San Diego), PyConIT 2022 (Florence), Connectomics 2022 (Berlin), SBDM 2021 (Paris), MLPrague 2021 (online), MLinPL'20 (online), Neuromatch2 (online), SfN 2019 (Chicago), ITAI 2019 (Cardiff), HEALTAC 2019 (Cardiff), MEG UK 2019 (Cardiff), Science Polish Perspectives 2018 (Oxford), OHBM 2018 (Singapore), MEG UK 2018 (Londonderry/Derry), Brainstorm 2016 (Warsaw), Mind, Brain and Body Symposium 2016 (Berlin), Neuronus 2015 (Cracow), 4th Aspects of Neuroscience 2014 (Warsaw)
Workshops:
Code Review Workshop 2022 Big Data and High-Performance Computing 2018 & 2019 (invited talk), Shiny semantic workshop at SatRday Gdańsk 2019, 4th Baltic-Nordic Summer School on Neuroinformatics 2016
Meet-ups:
SatRday Amsterdam, PyData Cardiff, CaRdiff
I am/was active member of various coding communities, i.e. CaRdiff R Users, AI Wales and PyData Cardiff. Also, I was involved in:
(2021-23) Data Champions at University of Cambridge.
(2020) Tutoring and co-organising Brain Modelling Workshop at Cardiff University;
(2020) Tutoring Shiny workshop, organised by CaRdiff R Users group;
(2019) Co-organising SatRday Cardiff;
(2019) Helping out at BMVC conference in Cardiff;
(2018) Organising workshop Best programming practices for open science for GW4. The workshop aimed to promote good programming standards for reproducible research.