Semi-manual alignment to reference templates (SMART): An open source pipeline in R for whole brain mapping
☆15Oct 27, 2021Updated 4 years ago
Alternatives and similar repositories for SMART
Users that are interested in SMART are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Code for the image processing and analysis described our Nature Protocols paper.☆10Jun 26, 2015Updated 11 years ago
- Pipeline to find transcription factor footprints in DNase-seq or ATAC-seq datasets☆13Nov 24, 2018Updated 7 years ago
- Concordance between variant callers☆17Nov 27, 2014Updated 11 years ago
- commandline manipulation of genomic variants and NGS reads☆19Sep 6, 2024Updated last year
- MagellanMapper is a graphical interface for 3D bioimage annotation, atlas registration, and regional quantification☆22Mar 30, 2026Updated 3 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Detection of Objects and tracking Research Interactive Software☆16Apr 7, 2026Updated 3 months ago
- snakemake workflow for post-processing scATACseq data☆23Jul 15, 2020Updated 6 years ago
- Hardware documentation for the mesoSPIM microscope project☆35Jun 17, 2026Updated last month
- ☆20Apr 6, 2022Updated 4 years ago
- Read and write files from the BrainGlobe neuroanatomy suite☆15Jul 14, 2026Updated last week
- A versatile image analysis software for biological image-based quantification using machine learning, especially for whole slide imaging.☆59Apr 16, 2021Updated 5 years ago
- Web Scraping and Knowledge Graphs with Machine Learning [Guide]☆10Jul 1, 2021Updated 5 years ago
- EE590: Advanced Programming for Embedded Systems☆26Jan 6, 2020Updated 6 years ago
- Visualization of multiple tandem mass spectrometry data☆10Jun 15, 2020Updated 6 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Example vignette for dotdotdot software☆19Apr 9, 2021Updated 5 years ago
- High-throughput Detection of Neurons for Brain-wide analysis with Deep Learning☆18Feb 21, 2022Updated 4 years ago
- heuristics to merge structural variant calls in VCF format.☆38Oct 6, 2016Updated 9 years ago
- Harvard FAS informatics scRNAseq workshop website☆39Aug 8, 2019Updated 6 years ago
- Fiber Photometry Modular Analysis Tool Suite☆44Jul 26, 2021Updated 4 years ago
- Live Mouse Tracker analysis☆36May 15, 2026Updated 2 months ago
- SimBA (Simple Behavioral Analysis), a pipeline and GUI for developing supervised behavioral classifiers☆365Updated this week
- One-hot Code for deep learnning 用于深度学习的独热码编码与解码☆12Aug 17, 2019Updated 6 years ago
- Automated 3D cell detection in very large images☆230Updated this week
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- An FFT-Based Technique for Translation, Rotation, and Scale-Invariant Image Registration☆22May 26, 2016Updated 10 years ago
- Syntax - the arrangement of whole-slide-images and their image tiles to create well-formed computational pathology pipelines.☆55Nov 22, 2022Updated 3 years ago
- ClearMap is a python toolbox for the analysis and registration of volumetric data from cleared tissues.☆53Jun 18, 2020Updated 6 years ago
- Provides classes for working with sets☆11Dec 19, 2025Updated 7 months ago
- Implementation of the matrixStats API for sparse matrices☆55Apr 2, 2025Updated last year
- ☆56Aug 30, 2024Updated last year
- CORNAS is a fast method for reliable DEG calls in unreplicated conditions.☆13Jul 14, 2019Updated 7 years ago
- This toolbox includes routines for using principal component analysis (PCA) and independent component analysis (ICA) to extract cellular …☆27Aug 18, 2018Updated 7 years ago
- Publication Page for Satpathy*, Granja* et al 2019☆96Apr 29, 2020Updated 6 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- ☆27Dec 9, 2022Updated 3 years ago
- Janelia Workstation☆28Jun 30, 2026Updated 3 weeks ago
- Multi-sample somatic variant caller☆52Jan 27, 2022Updated 4 years ago
- Analysis of smFISH data☆12Aug 27, 2018Updated 7 years ago
- Website and slides for intro to bioinformatics class at Fred Hutch☆13Jun 4, 2018Updated 8 years ago
- Snakemake with pytest example☆11Jul 18, 2020Updated 6 years ago
- The Tomographer package implements the mathematical spatial image reconstruction of any set of read counts as described in the following …☆11May 15, 2021Updated 5 years ago