aplbrain / saber
☆16Updated last year
Alternatives and similar repositories for saber:
Users that are interested in saber are comparing it to the libraries listed below
- manually align specimens to annotated 3D spaces☆19Updated last year
- R package to infer spatial location of neuronal subpopulations within the developing mouse brain by integrating single-cell RNA-seq data …☆17Updated 9 years ago
- ☆12Updated 11 months ago
- R package for segmentation, registration and generating web-based brain atlases from microscope images☆87Updated 3 years ago
- EASI-FISH analysis pipeline for spatial transcriptomics☆33Updated 2 months ago
- Code for the image processing and analysis described our Nature Protocols paper.☆10Updated 9 years ago
- ☆32Updated last year
- Semi-manual alignment to reference templates (SMART): An open source pipeline in R for whole brain mapping☆14Updated 3 years ago
- COmmon COordinate FRAMEwork in R☆36Updated 4 years ago
- This repository contains the code used for the paper "Molecular Atlas of the Adult Mouse Brain".☆15Updated 3 years ago
- Phenotypic variation of transcriptomic cell types in mouse motor cortex☆24Updated 3 years ago
- Matlab software for the analysis of MERFISH data and the construction of MERFISH probes.☆50Updated 3 years ago
- Graph-based Decoding for In Situ Sequencing☆10Updated 4 years ago
- BlueBrain's recipe writer to parameterize structure and logic of a mouse whole-neocortex connectome☆10Updated 2 years ago
- AICS Segmentation (One-Way) Mirror☆45Updated 4 years ago
- Block-wise task scheduling for large nD volumes.☆29Updated 3 months ago
- Nextflow pipeline encapsulating workflows for analyzing expansion lattice light-sheet microscopy (ExLLSM) imagery☆13Updated 3 weeks ago
- The code for the Hidden Markov Model Generalized Linear Model used to model discrete complex behavior profiles of mice using neural activ…☆10Updated 2 years ago
- An automatic deep learning algorithm for spot detection in fluorescence microscopy images.☆17Updated last month
- MERlin is an extensible analysis pipeline applied to decoding MERFISH data☆36Updated 3 years ago
- Tools and scripts for EASI-FISH image data analysis☆17Updated 2 years ago
- Density valley clustering (cluserdv). Matlab implementation.☆26Updated 6 years ago
- A collection of resources on bioimage analysis and related tools and techniques☆13Updated last year
- Efficient cell detection in large images using cellfinder in napari☆23Updated last year
- MERFISHTools implement a Bayesian framework for accurately predicting gene or transcript expression from MERFISH data. On top, they provi…☆14Updated 5 years ago
- Detect morphological motifs, such as blebs, filopodia, and lamellipodia, from 3D images of surfaces, particularly images of cell surfaces…☆28Updated last month
- Legacy project superseded by https://github.com/morphonets/SNT☆11Updated 3 years ago
- Jupyter Notebooks for the Image Data Resource☆18Updated 2 years ago
- Tool for precise, interactive, fast and scalable FISH spot detection☆48Updated last week
- Image registration (alignment) software for large microscopy images☆22Updated last year