Friedrich Miescher Institute for Biomedical Research

Basel, Switzerland

Pinned Repositories

brainscales-2-surrogate-gradients
Language:Python5 7 12
faim-cryoflare
CryoFLARE: FMI Live Analysis and Reconstruction Engine for single particle Cryo EM data
Language:C++4 7 10
glib-nature2018-materials
Image Processing Package for the Paper "Self-organization and symmetry breaking in intestinal organoid development"
11 10 13
gliberal-scMultipleX
Feature extraction and linking of multiplexing data.
Language:Python8 4 650
GUIFold
GUI for running jobs with a local installation of AlphaFold2. Supports submission to queuing systems.
Language:Python6 6 10
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
Language:Jupyter Notebook19 9 45
LSTree
LSTree is a digital organoid and lineage tree extraction workflow for light sheet movies.
Language:Python17 6 50
neural-tangent-transfer
Code accompanying our paper "Finding trainable sparse networks through Neural Tangent Transfer" to be published at ICML-2020.
Language:Jupyter Notebook13 4 48
RDCNet
Recurrent Dilated Convolutional Network
Language:Python9 8 11
stork
A differentiable spiking neural network simulator
Language:Python13 7 04

Friedrich Miescher Institute for Biomedical Research's Repositories

fmi-basel/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
Language:Jupyter Notebook19 9 45
fmi-basel/stork
A differentiable spiking neural network simulator
Language:Python13 7 04
fmi-basel/gliberal-scMultipleX
Feature extraction and linking of multiplexing data.
Language:Python8 4 650
fmi-basel/GUIFold
GUI for running jobs with a local installation of AlphaFold2. Supports submission to queuing systems.
Language:Python6 6 10
fmi-basel/faim-cryoflare
CryoFLARE: FMI Live Analysis and Reconstruction Engine for single particle Cryo EM data
Language:C++4 7 10
fmi-basel/faim-robocopy
A python-based UI for robocopy
Language:Python3 8 90
fmi-basel/implicit-var-reg
Language:Jupyter Notebook3 1 0
fmi-basel/gbuehler-MiniChip
small collection of R functions for ChIPseq analysis
Language:HTML2 5 01
fmi-basel/binary-activation-maps-sqp
1
fmi-basel/disinhibitory-control
Language:Jupyter Notebook1 3 0
fmi-basel/gfriedri-em-alignment-flows
Language:Python1 7 9
fmi-basel/gliberal-lightsheet-2023
Language:Python1 3 00
fmi-basel/guifold-alphafold2
Open source code for AlphaFold.
Language:Python1 2 0
fmi-basel/neuRoi
Language:MATLAB1 2 125
fmi-basel/ggiorget-spt-analysis
Language:Jupyter Notebook0 6 00
fmi-basel/ggiorget-spt-parameter-sweep
ggiorget-spt-parameter-sweep
Language:Jupyter Notebook0 6 00
fmi-basel/improc
Language:Jupyter Notebook0 6 00
fmi-basel/dl-utils
Language:Python6 0
fmi-basel/faim-ij1-io
A simple IJ2 wrapper for reading and writing TIFF files through IJ1
Language:Java5 0
fmi-basel/faim-ij2-ij
Simple headless SciJava wrappers around ImageJ plugins
Language:Java6 0
fmi-basel/faim-jetraw
Language:Python6 4
fmi-basel/faim-retina-chatbands
Language:Python
fmi-basel/gbuehler-dinoR
R package for differential NOMe-seq data analysis.
Language:R3 0
fmi-basel/gbuehler-NOMeConverteR
functions to convert between NOMe-seq data representation formats
Language:R3 0
fmi-basel/gchao-koopa-flows
Language:Python5 0
fmi-basel/gchao_RPL-Myc
Language:Python5 3
fmi-basel/gpeters-fetchNOMe
R package for fetching NOMe-seq data from BAM files
Language:C++3 0
fmi-basel/guifold-rosettafold2
fmi-basel/HT_OrganoidAnalysis
Code accompanying the manuscript "Dynamics and plasticity of stem cells in the regenerating human colonic epithelium" by Oost, Kahnwald et al. from the Liberali Lab.
Language:Python2 0
fmi-basel/surrogate-gradient-theory
Language:Jupyter Notebook