Explore @fmi-basel Open Source projects

Friedrich Miescher Institute for Biomedical Research (@fmi-basel)

fmi-basel

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Location 🇨🇭 Switzerland
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latent-predictive-learning

Code to accompany our paper "The combination of Hebbian and predictive plasticity learns invariant object representations in deep sensory networks” bioRxiv 2022

Jupyter Notebook

stork

A differentiable spiking neural network simulator

neural-tangent-transfer

Code accompanying our paper "Finding trainable sparse networks through Neural Tangent Transfer" to be published at ICML-2020.

Jupyter Notebook

LSTree

LSTree is a digital organoid and lineage tree extraction workflow for light sheet movies.

glib-nature2018-materials

Image Processing Package for the Paper "Self-organization and symmetry breaking in intestinal organoid development"

RDCNet

Recurrent Dilated Convolutional Network

gliberal-scMultipleX

Feature extraction and linking of multiplexing data.

GUIFold

GUI for running jobs with a local installation of AlphaFold2. Supports submission to queuing systems.

brainscales-2-surrogate-gradients

faim-cnn-course

Jupyter Notebook

faim-cryoflare

CryoFLARE: FMI Live Analysis and Reconstruction Engine for single particle Cryo EM data

neural-decoding-RSNN

Recurrent spiking neural networks (RSNNs) for decoding of motor signals from cortical spike trains

implicit-var-reg

Jupyter Notebook

gfriedri-em-alignment

Alignment tools used in the Friedrich lab.

glib-lukonin-et-al-2020

Image Segmentation Package for the Paper "Phenotypic landscape of intestinal organoid regeneration"

faim-robocopy

A python-based UI for robocopy

gbuehler-MiniChip

small collection of R functions for ChIPseq analysis

disinhibitory-control

Jupyter Notebook

buehler-colonyclassification

Pipeline for automated yeast colony classification using neural networks

gfriedri-em-alignment-flows

oppfin

Opportunity Finder in collaboration with FMI and EUResearch

faim-imagej-imaris-tools

Commands to interact with Imaris File Converter

neuRoi

splitrsync

A tool to parallelize rsync based transfers

RosEM

Pipeline and GUI for cryoEM model refinement using Rosetta and Phenix

gchao-koopa

Keenly optimized obliging picture analysis

ggrosshans_analysis_dpf-3

Analysis for dpf-3 with ce11

Jupyter Notebook