Search Results for "cell"
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Showing 826 open source projects for "cell"
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awesome-single-cell
Community-curated list of software packages and data resources
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc. List of software packages (and the people developing these methods) for single-cell data analysis, including RNA-seq, ATAC-seq, etc. Rapid, accurate and memory-frugal preprocessing of single-cell and single-nucleus RNA-seq data. Find bimodal, unimodal, and multimodal features in your data. Ascend is an R package comprised of fast, streamlined analysis functions optimized to address the statistical challenges of single cell RNA-seq. ... -
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CellTypist
A tool for semi-automatic cell type classification, harmonization
CellTypist is an automated tool for cell type classification, harmonization, and integration. Classification, transfer cell type labels from the reference to query dataset. Harmonization, match and harmonize cell types defined by independent datasets. integration, integrate cell and cell types with supervision from harmonization. CellTypist recapitulates cell type structure and biology of independent datasets. -
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3DCellForge
AI-powered interactive 3D cell generation and exploration studio
3DCellForge is an AI-powered 3D cell generation and exploration studio built as a polished browser prototype. It uses React, Vite, Three.js, React Three Fiber, Drei, and Framer Motion to create an interactive WebGL environment for exploring biological cell models. Users can rotate, zoom, inspect organelles, compare views, take notes, capture screenshots, and export or import GLB models. -
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Seurat
R toolkit for single cell genomics
Seurat is a comprehensive R toolkit for single-cell genomics analysis, introduced by the Satija Lab at NYGC. It supports quality control, normalization, clustering, integration of multimodal data (e.g., scRNA‑seq, spatial, CITE‑seq), and visualization. Seurat v5 introduces scalable workflows and spatial transcriptomics support, commonly used in academic and industry research for single-cell studies. -
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Scanpy
Single-cell analysis in Python
Scanpy is a scalable toolkit for analyzing single-cell gene expression data built jointly with anndata. It includes preprocessing, visualization, clustering, trajectory inference and differential expression testing. The Python-based implementation efficiently deals with datasets of more than one million cells. -
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harmonypy
Integrate multiple high-dimensional datasets with fuzzy k-means
Harmony is an algorithm for integrating multiple high-dimensional datasets. harmonypy is a port of the harmony R package by Ilya Korsunsky. Harmony is a general-purpose R package with an efficient algorithm for integrating multiple data sets. It is especially useful for large single-cell datasets such as single-cell RNA-seq. -
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Flying Carpet
File transfer between Android, iOS, Linux, macOS, and Windows
Send and receive files between Android, iOS, Linux, macOS, and Windows over ad hoc WiFi. No shared network or cell connection required, just two devices with WiFi chips in close range. Don't have a flash drive? Don't have access to a wireless network? Need to move a file larger than 2GB between different filesystems but don't want to set up a network share? Try it out! -
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Themis
Easy to use cryptographic framework for data protection
...Themis hides cryptographic details and eliminates popular mistakes. Themis provides ready-made building blocks (“cryptosystems”) for secure data storage, message exchange, socket connections, and authentication. Secure Cell is a multi-mode cryptographic container suitable for storing anything from encrypted files to database records. Use Secure Cell to encrypt data at rest. Secure Cell is built around AES-256-GCM, and AES-256-CTR. Secure Message is a simple encrypted messaging solution for the widest scope of applications. Use Secure Message to send encrypted and signed data from one user to another, from client to server, to prevent MITM attacks and avoid single secret leakage. ... -
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nichenetr
NicheNet: predict active ligand-target links between interacting cells
...This model of prior information on potential ligand-target links can then be used to infer active ligand-target links between interacting cells. NicheNet prioritizes ligands according to their activity (i.e., how well they predict observed changes in gene expression in the receiver cell) and looks for affected targets with high potential to be regulated by these prioritized ligands. -
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CGAL
The Computational Geometry Algorithms Library
...These algorithms are useful in a wide range of applications, including computer aided design, robotics, molecular biology, medical imaging, geographic information systems and more. CGAL features a great range of data structures and algorithms, including Voronoi diagrams, cell complexes and polyhedra, triangulations, arrangements of curves, surface and volume mesh generation, spatial searching, alpha shapes, geometry processing, and many more. The use of these result in beautiful, visually complex and accurate representations. -
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Handcalcs
Python library for converting Python calculations into rendered latex
Handcalcs is a Python library that auto-renders calculation code in Jupyter notebooks or LaTeX documents with step-by-step symbolic substitution, giving output a “handwritten” feel. It supports cell magics and auto-LaTeX generation via configurable output options. -
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TCG
Terminal cell graphics library
Terminal Cell Graphics (TCG) is a Go library that enables 1-bit graphics rendering in terminal applications using Unicode block symbols. It's designed for developers who want to incorporate simple graphics into CLI tools or games, providing a unique way to display visuals in text-based environments. -
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MBeautifier
MBeautifier is a MATLAB source code formatter, beautifier
MBeautifier is a lightweight M-Script-based MATLAB source code formatter usable directly in the MATLAB Editor. -
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nbmake
Pytest plugin for testing notebooks
Pytest plugin for testing and releasing notebook documentation. To raise the quality of scientific material through better automation. Research/Machine Learning Software Engineers who maintain packages/teaching materials with documentation written in notebooks. -
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pytablewriter
pytablewriter is a Python library to write a table in various formats
pytablewriter is a Python library to write a table in various formats: AsciiDoc / CSV / Elasticsearch / HTML / JavaScript / JSON / LaTeX / LDJSON / LTSV / Markdown / MediaWiki / NumPy / Excel / Pandas / Python / reStructuredText / SQLite / TOML / TSV / YAML. -
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jQuery Calx
A jQuery plugin for creating formula-based calculation form
jQuery Calx is an Excel calculation engine and formula parser built as a jQuery plugin, it offers spreadsheet ability to process and calculate the formula without bringing a table-like spreadsheet interface. In the core of jQuery Calx is a formula parser generated using jison which parse and processes the formula and set of formulas imported from formula.js. -
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Wflow.jl
Hydrological modeling
...Wflow is conceived as a framework, within which multiple distributed model concepts are available, which maximizes the use of open earth observation data, making it the hydrological model of choice for data-scarce environments. Based on gridded topography, soil, land use and climate data, wflow calculates all hydrological fluxes at any given grid cell in the model at a given time step. -
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GoNB
GoNB, a Go Notebook Kernel for Jupyter
...As a side benefit it works with packages that use CGO — although it won't parse C code in the cells, so it can't be used as a C kernel. It already includes many goodies: cache between cell of results, contextual help and auto-complete (with gopls), compilation error context (by mousing over), bash command execution, images, html, etc. See the tutorial. It's been heavily used by the author (in developing GoMLX, a machine learning framework for Go), but should still be seen as experimental — if we hear success stories from others, we can change this. -
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Livewire PowerGrid
PowerGrid generates Advanced Datatables using Laravel Livewire
PowerGrid creates modern, powerful and easy-to-customize Datatables based on the Laravel Livewire library. Tables have basic features activated by default. Extend and customize your table including components (checkbox, action buttons, editable fields), global search feature, column data filters, and data export tool. Table components include feature examples. Just uncomment some code, enter your data, and it works. -
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marimo
A reactive notebook for Python
...You'll always be able to reproduce your collaborators' results. Notebooks are executed in a deterministic order, with no hidden state, delete a cell and marimo deletes its variables while updating affected cells. -
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spyder
The scientific Python development environment
Spyder is a free and open source scientific environment written in Python, for Python, and designed by and for scientists, engineers and data analysts. It features a unique combination of the advanced editing, analysis, debugging, and profiling functionality of a comprehensive development tool with the data exploration, interactive execution, deep inspection, and beautiful visualization capabilities of a scientific package. Spyder’s multi-language Editor integrates a number of powerful tools... -
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Memtest86+
Stand-alone memory tester for x86 and x86-64 architecture computers
...The tool can be booted directly via BIOS or UEFI, or through compatible bootloaders, making it highly flexible for troubleshooting unstable systems. It uses advanced testing algorithms specifically designed to detect intermittent, hard-to-find memory errors caused by cell interaction and hardware behavior. With ongoing development and community contributions, Memtest86+ remains a trusted solution for diagnosing memory-related system issues. -
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Apple WLOC
Modify Apple network location (gs-loc) to return coordinates
Apple WLOC is a network-location modification project for Apple WLOC positioning responses. It is designed to change the coordinates returned by Apple’s Wi-Fi and cell-tower location service, creating a virtual iOS network-location result. The project supports several proxy and scripting tools, including Surge, Quantumult X, Loon, Stash, Shadowrocket, and Egern-compatible workflows. It includes a web-based location picker as well as Shortcuts-based setup and restore options. The picker can parse location links from Apple Maps, Google Maps, Amap, Baidu Maps, and coordinate text. ... -
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tidyr
Tidy Messy Data
tidyr is a core tidyverse package designed to help reshape and clean messy datasets into tidy data—i.e., data frames where each variable is a column, each observation is a row, and each value is a cell. -
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rust_core
A pure Dart implementation of patterns found in Rust's core library
rust_core is a pure Dart implementation of patterns found in Rust's core library, bringing the power of Rust to Dart.
