sha256
stringlengths
64
64
language
stringclasses
27 values
size
int32
1
491k
lines
int32
1
21.8k
content
stringlengths
1
200k
076222a11d0b896aa738d822cc23be3335b079d1c7d5b81880e43b843ab5d2a8
Text
15,855
266
# Feature Extraction From Videos This repository contains code and resources for extracting features from video files. *Note:* This repository is a work in progress, with many aspects likely to undergo changes or updates. --- The following features are currently implemented: - Low-level visual features: - [RGB-HSV...
021fe9314277e42f1a36b80fe17ec8848dfa556dd2640118b9fc16a248992052
Text
15,888
202
# <a name="top"></a>JuSpyce - a toolbox for flexible assessment of spatial associations between brain maps [![DOI](https://zenodo.org/badge/506986337.svg)](https://zenodo.org/badge/latestdoi/506986337) [![License: CC BY-NC-SA 4.0](https://img.shields.io/badge/License-CC%20BY--NC--SA%204.0-lightgrey)](http://creative...
26521e2592b9470e61943e74dea4a1b3d043ca0856c5631ff50eb05acb02182f
Text
15,997
262
# EMPRISE-analysis **EMPRISE - EMergence of PRecISE numerosity representations in the human brain** This code belongs to the [EMPRISE project](https://docs.google.com/document/d/1NplHdKIxAtiP9eXvE_wwQogRfu9pO_3gWW6BLUdUZak/edit) within the [Skeide Lab](https://www.skeidelab.com/) at the [Max Planck Institute for Huma...
03c90967c3a62a4cb3f92f56c1cdabaa75160d15e0494e9c099f6ddd06916a57
Text
16,206
202
# Leading Eigenvector Dynamics Analysis Toolbox - Matlab This toolbox enables the neuroscience community to apply the Leading Eigenvector Dynamics Analysis (LEiDA) method to functional MRI data with the goal of understanding brain dynamics. Below you can find a set of instructions that will guide the application of th...
94579c8adb2dcf23ae65a8238916e2ae1e54370835a18f76765cdd75cb289002
Text
16,218
211
# ccfv3a-extended-atlas # Overview This repository contains the code developed for producing the CCFv3aBBP Nissl-based atlas, an extension of the Allen Institute's Common Coordinate Framework version 3 (CCFv3). The project focuses on enhancing the anatomical correspondance between the Allen Reference Atlas (ARA) Nissl...
e77c5bf0c9ed43ddf82f01cb5b4648d627313a623e278bf872b08742c19b1ab5
Text
16,310
277
# MedicalPatchNet: A Patch-Based Self-Explainable AI Architecture for Chest X-ray Classification [![Python](https://img.shields.io/badge/Python-3.10.4-blue.svg)](https://python.org) [![PyTorch](https://img.shields.io/badge/PyTorch-2.5.1-orange.svg)](https://pytorch.org) <!--TODO: Add [![License](https://img.shields.io...
98c5b8614ce412c47790876e1aa6036bb7754a303a75332c08d0ba5d2d3d5f95
Text
16,394
166
# Memory consolidation in recurrent spiking neural networks ## Outline This package serves to simulate recurrent spiking neural networks with calcium-based synaptic plasticity and synaptic tagging and capture. The generic C++ code and build scripts for specific simulations are located in the directory __simulation-c...
e6e3d3fc9311732c032c9c26870b78e1bb04bbf6d0f56f70c2db598f73029892
Text
16,416
200
# Imagenette > 🎶 *Imagenette, gentille imagenette,* > > *Imagenette, je te plumerai.* 🎶 > > (Imagenette theme song thanks to [Samuel Finlayson](https://twitter.com/IAmSamFin/status/1103737947004854272)) ---- **NB:** - Versions of Imagenette and Imagewoof with noisy labels are now available as CSV files that come ...
4fd61fec9bd7204dcfe8045b87f2faeee6ca5f69eb28a97835c15aaa26b94f53
Text
16,538
323
# Welcome to CLOOSE! <img src="Logo/Logo.png" width="500" title="CLOOSE" alt="CLOOSE" align="right" vspace = "100"> # 1. Overview Pipeline for running BCI experiments and online analysis of 1 and 2 photon imaging data Copyright (C) 2025 Massachusetts Institute of Technology CLOOSE is currently under development and ...
16b2dc38c5e25798e7efa08abf5e4b586acedd4bffe0a1513aca1cce5f14bced
Text
16,553
326
# BrainLes-Preprocessing [![Python Versions](https://img.shields.io/pypi/pyversions/brainles-preprocessing)](https://pypi.org/project/brainles-preprocessing/) [![Stable Version](https://img.shields.io/pypi/v/brainles-preprocessing?label=stable)](https://pypi.python.org/pypi/brainles-preprocessing/) [![Documentation S...
f6b79ab8bde1c018af12c5c514d633c271c70b915b70928bd30dd7826013efef
Text
16,610
193
# CMU-Multimodal SDK Version 1.2.0 (mmsdk) CMU-Multimodal SDK provides tools to easily load well-known multimodal datasets and rapidly build neural multimodal deep models. Hence the SDK comprises of two modules: 1) mmdatasdk: module for downloading and procesing multimodal datasets using computational sequences. 2) mm...
84e451447a00a361e8c601cf8bc058d8c107c013674e148a8d501a32fe01666f
Text
16,986
361
<!-- *** Thanks for checking out the Best-README-Template. If you have a suggestion *** that would make this better, please fork the repo and create a pull request *** or simply open an issue with the tag "enhancement". *** Thanks again! Now go create something AMAZING! :D *** *** *** *** To avoid retyping too ...
30359f3cbba51ade00cdf47b41d9f5d9406266fc69827bf7b1919fc34542ce13
Text
17,266
419
<p align="left"> <img src="logo/chemgraph-color-dark__rgb-hires.jpg" alt="ChemGraph logo" width="240"> </p> [![Tests](https://github.com/argonne-lcf/ChemGraph/actions/workflows/tests.yml/badge.svg)](https://github.com/argonne-lcf/ChemGraph/actions/workflows/tests.yml) [![PyPI](https://img.shields.io/pypi/v/chemgraph...
3aced991cc8639f04f6d5f0f69e57f06e5fc7013fc81154da5fd565dbc1f107d
Text
17,422
407
<!-- README.md is generated from README.Rmd. Please edit that file --> ## Overview BANKSY is a method for clustering spatial omics data by augmenting the features of each cell with both an average of the features of its spatial neighbors along with neighborhood feature gradients. By incorporating neighborhood inform...
0abdb859e497c2008b453b60e5e040265d11f284b47f1ef7072012dc60ab038c
Text
17,447
449
# Neural Rejuvenation Model: Population-Level Dynamics in Addiction [![MATLAB](https://img.shields.io/badge/MATLAB-R2023a+-blue.svg)](https://www.mathworks.com/products/matlab.html) [![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT) A computational framework fo...
f99f027ea7f3fda878b0472788e6283506dde021911fe73b3fc7abb3ca0ad854
Text
17,584
457
# MReye-Seg An open-access pipeline for MRI-based eye globe segmentation, landmark transformation, fiducial metric extraction, and globe shape (contour map) analysis. **License:** MIT **Author:** Ge Tang --- ## Table of Contents 1. [Overview](#overview) 2. [Prerequisites](#prerequisites) 3. [Data Preparation](#dat...
a323c26422cd8943a1441b7b297eb998b9fe558f0bdc3eb411f3de44b177331b
Text
17,904
522
<div align="center"> # Source code for Geometric Transformers for Protein Interface Contact Prediction (ICLR 2022) [![Paper](http://img.shields.io/badge/paper-arxiv.2110.02423-B31B1B.svg)](https://openreview.net/forum?id=CS4463zx6Hi) [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.6671582.svg)](https://doi.org/10...
96d6b5b49d1b94240d6e68caac705af90f9874bd36658227ddc7e2eca5a34c26
Text
17,919
256
[![Downloads](https://static.pepy.tech/badge/opencv-python)](http://pepy.tech/project/opencv-python) ### Keep OpenCV Free OpenCV is raising funds to keep the library free for everyone, and we need the support of the entire community to do it. [Donate to OpenCV on Github](https://github.com/sponsors/opencv) to show yo...
92c982e111625e512df67000484ab57af9bc927656f7dfa9faa21fa3a9dce65d
Text
18,002
133
# Annotations for the [PI-CAI Challenge](https://pi-cai.grand-challenge.org/): Public Training and Development Dataset --- ### Updates 🚨 13 July 2026: We have released the [PI-RADS][PI-RADS] scores assigned during routine practice for each of the 1500 cases spanning the **Public Training and Development Dataset...
10d54e4405c7ffd0a2e6a72de5285fcfedf8471fdb338cf0daf2e825ab6d52d0
Text
18,142
596
# 1. Introduction Spa3D is an algorithm that utilizes spatial pattern enhancement and graph convolutional neural network model to reconstruct 3D-based spatial structure from multiple spatially resolved transcriptomics (SRT) slides with 3D spatial coordinates. Paper: 3D reconstruction of spatial transcriptomics w...
bc3cfef5562deeffd2ecc5aadf2c46745ef08648df804597725dd5204ad4f478
Text
18,181
425
--- title: pyment-public model_file: artifacts/sfcn-multi.onnx license: cc-by-nc-4.0 pipeline_tag: image-classification tags: - neuroimaging - multi-task - structural t1 mri - brain age --- This repository contains pretrained predictive models for structural Magnetic Resonance Images from multiple publications....
fab3b8e5e715f628f84b93912b076629f4d3c49ac7ae0a327816fdb74565ff77
Text
18,315
299
![MARINE logo](images/MARINE_logo.png) ------------------------------------------------------ # Table of Contents - [Introduction](#introduction) - [System Requirements](#system-requirements) - [Installation](#installation) - [Notes](#notes) - [Command Parameters](#command-parameters) - [Examples](#examples) - [Singl...
6a0e70a566c1fe5dafd25cea62fe0bffc11cbbb3535ee5e327e1f977049d303f
Text
18,997
265
[![DOI](https://zenodo.org/badge/399400923.svg)](https://zenodo.org/badge/latestdoi/399400923) ![alt text](graph_abstract.png "Logo Title Text 1") ## Introduction Welcome to the project page of *VesselGraph* A Dataset and Benchmark for Graph Learning and Neuroscience. <br/> Biological neural networks define human and...
ad8cf512eead1106b38c8c2a87fb5f631f2133f5b9dab0d96f6522722b3e29e2
Text
19,182
444
<div align="center"> ![tests](https://github.com/bozeklab/histo-miner/actions/workflows/tests.yml/badge.svg) [![arXiv](https://img.shields.io/badge/arXiv-2505.04672-b31b1b.svg)](https://arxiv.org/abs/2505.04672) [![CC BY-NC-SA 4.0][cc-by-nc-sa-shield]][cc-by-nc-sa] </div> # Histo-Miner: Tissue Features Extraction Wi...
d08aac96d28c060c1eee0cf585921415d1f591a4c2f88757b5005e3f2c821700
Text
19,214
447
<!-- Improved compatibility of back to top link: See: https://github.com/othneildrew/Best-README-Template/pull/73 --> <a name="readme-top"></a> <!-- *** Thanks for checking out the Best-README-Template. If you have a suggestion *** that would make this better, please fork the repo and create a pull request *** or simp...
b722be07d65374ae898853c01089da3ff0cc32fe2caa0a7fa49a4b0a2b3f8704
Text
19,314
179
# Memory consolidation in recurrent spiking neural networks ## Outline This package serves to simulate recurrent spiking neural networks with calcium-based synaptic plasticity and synaptic tagging and capture. The generic C++ program code and build scripts for specific simulations are located in the directory __simu...
90b0547e64c9ce41efea0a5f4be5f1116427e98647330e75b3dedf90c3aa9c3f
Text
19,403
477
# Delocalization Score for MALDI-MSI [![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT) [![Python 3.9+](https://img.shields.io/badge/python-3.9%2B-blue.svg)](https://www.python.org/downloads/) [![DOI](https://img.shields.io/badge/DOI-10.1021%2Facsmeasuresciau.5c...
0b9d8282146a7eff163cc24de045e1d944cd9d09ad6812ccad1c74cfb9c35054
Text
19,427
339
.. warning:: The Blue Brain Project concluded in December 2024, so development has ceased under the BlueBrain GitHub organization. Future development will take place at: https://github.com/openbraininstitute/connectome-manipulator |banner| |license| |doi| |tox| |coverage| |release| |doc| Connectome-Manipulator...
3b43a1775b1094c9ecbb753a33e4a824a25e4c48f8d243cb9559319b3ec76f5c
Text
19,532
252
# SEPIA (SuscEptibility mapping PIpeline tool for phAse images) ![sepia logo](https://sepia-documentation.readthedocs.io/en/latest/_static/logo.png) ## Introduction **SEPIA** is a tool providing a graphical user interface to build data processing pipeline of quantitative susceptibility mapping (QSM) in Matlab. Th...
179fb06ff0b8239797e38d36072c64a5c2ef480714b505f4726e6c5712f885c5
Text
20,108
482
# A deep learning framework for metabolite identification using enhanced MS/MS data and multidimensional molecular embeddings A deep learning framework for metabolite identification using enhanced MS/MS data and multidimensional molecular embeddings is designed to process mass spectrometry data, perform predictions us...
7e83be99617b2ebaeb0ab228daaa1af19959a216a44a6f219c1a7d2947c9caa2
Text
20,130
252
# Multi-Omics Factor Analysis v2 (MOFA+) ### Important notice: [MOFA v1](https://github.com/bioFAM/MOFA) is officially depreciated, please switch to [MOFA v2](https://github.com/bioFAM/MOFA2) even if you are not planning to use the novel functionalities. ## What is MOFA? MOFA is a factor analysis model that provides...
7be81b9f37c9b7cfcf17bd8ff31b7d0ae5d04b45d9b8730af6fe31d70219803e
Text
20,573
486
<!-- README.md is generated from README.Rmd. Please edit that file --> # MRlap <img src="inst/Figures/logo.png" align="right" height=180/> <!--- # https://github.com/GuangchuangYu/hexSticker library(hexSticker) imgurl <- "inst/Figures/MRlap2.png" sticker(imgurl, package="", p_size=8, p_color="black", ...
6c3569bf7afa33b9c069d9aa2d9eab3f6c7a8f437391a8ade414a298b06472bd
Text
20,608
368
# Learning to simulate realistic human diffuse reflectance spectra (mcmlnet) [![Python 3.11+](https://img.shields.io/badge/python-3.11+-blue.svg)](https://www.python.org/downloads/) [![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT) [![Code style: ruff](https://...
3779958dc3882c1caad4056519968fd9c9d9a7fb612af4597182ff7c27d79446
Text
20,673
426
# Chromatin Interaction Neural Network (ChINN): ## A machine learning-based method for predicting chromatin interactions from DNA sequences ### This document provides a brief intro of running models in ChINN for training and testing. Before launching any job, make sure you have properly downloaded the ChINN code and...
a21c29eea090c26e2d7bd615a8d940cbaf8d4e4c83e03177b1da97e084d4b971
Text
20,784
252
# High content in vitro survival assay of cortical neurons Scripts file for the "High content in vitro survival assay of cortical neurons" paper on Bio-Protocol. ## Index - [High content in vitro survival assay of cortical neurons](#high-content-in-vitro-survival-assay-of-cortical-neurons) - [Index](#index) - ...
47f0dd7d7f960a8cf509b3388de91586cccec4fdd51e2ca7e56ef75d6630f65f
Text
21,146
340
# MRIsegmentation [![DOI](https://zenodo.org/badge/457134654.svg)](https://zenodo.org/badge/latestdoi/457134654) ### Automatic MRI segmentation pipeline for consistent [FEM](https://en.wikipedia.org/wiki/Finite_element_method) and [BEM](https://en.wikipedia.org/wiki/Boundary_element_method) mesh creation from MRI scans...
5488a9f29931fae6ca0218d8abe26fcb131d61af9a90572a45c40d4e0354ae29
Text
21,615
429
[![GitHub Downloads](https://img.shields.io/github/downloads/lh3/minimap2/total.svg?style=social&logo=github&label=Download)](https://github.com/lh3/minimap2/releases) [![BioConda Install](https://img.shields.io/conda/dn/bioconda/minimap2.svg?style=flag&label=BioConda%20install)](https://anaconda.org/bioconda/minimap2)...
505fcc98f5b9a4b21260c192b79fe7ff6fe7cb339f1f7580dd2c69b8889c4d97
Text
22,132
476
# Chinese Word Vectors 中文词向量 [中文](https://github.com/Embedding/Chinese-Word-Vectors/blob/master/README_zh.md) This project provides 100+ Chinese Word Vectors (embeddings) trained with different **representations** (dense and sparse), **context features** (word, ngram, character, and more), and **corpora**. One can eas...
d59649bba073c0a26f495e04e39e9f45c25e1e6551fc81ead29625d722123edf
Text
22,634
573
.. This file is generated by setup.py Image transformation, compression, and decompression codecs =========================================================== Imagecodecs is a Python library that provides block-oriented, in-memory buffer transformation, compression, and decompression functions for use in tifffile, l...
a80f3e391f32b7fb373881932415ab4ee7679df47da1e47d6883d9ae5e462a08
Text
24,106
413
# <img src="img/permutools_logo.png"> [![Maintenance](https://img.shields.io/badge/Maintained%3F-yes-brightgreen.svg)](https://github.com/mickcrosse/PERMUTOOLS/graphs/commit-activity) [![View PERMUTOOLS on File Exchange](https://www.mathworks.com/matlabcentral/images/matlab-file-exchange.svg)](https://uk.mathworks.com...
7ede21c46c43b41504ee85eb292ddf327f36383131fd5a431dd91c844f750a4d
Text
24,195
473
# Lifespan BrainChart Project * [Introduction](#introduction) * [Datasets](#Datasets) * [Lifespan curve estimates (and uncertainty)](#lifespan-curve-estimates--and-uncertainty-) * [Scripts](#scripts) + [Example usage](#example-usage) - [Obtaining population curves](#obtaining-population-curves) ...
e28b9a41339b5a99fbdb0b8f6a9e97aeed343cf56137a89e07bff4772e54c8e3
Text
24,699
476
# Cell Detection [![Downloads](https://static.pepy.tech/badge/celldetection?l)](https://pepy.tech/project/celldetection) [![Test](https://github.com/FZJ-INM1-BDA/celldetection/workflows/Test/badge.svg)](https://github.com/FZJ-INM1-BDA/celldetection/actions?query=workflow%3ATest) [![PyPI](https://img.shields.io/pypi/v/...
88be136755ae164ba74d5ddd72438bbfff40135d2221627ed202477c01389163
Text
24,932
472
# Hearing Is Believing: Experiments & analysis code *In this repository, all code for experiments and analysis can be found to reproduce results from:* ``` Schneider, F., & Blank, H. (2025). Sensory sharpening and semantic prediction errors unify competing models of predictive processing in in human speech comprehensi...
e0ecc86d39b8f7a394af4463575f8ccf151696c263fc30cda9731ad6b4bfe10c
Text
25,124
300
# Surface Morphometrics Pipeline ![Workflow Figure](https://raw.githubusercontent.com/baradlab/surface_morphometrics/master/Workflow_title.png) ### Quantification of Membrane Surfaces Segmented from Cryo-ET or other volumetric imaging. Author: __Benjamin Barad__/*<benjamin.barad@gmail.com>*, developed in close collabor...
072e1153632bdd51a301f2a9fe7f507b5bcaee7c25b09b9b184683e1e06b95b6
Text
25,274
371
<h1 align="center"> Ouroboros </h1> <h3 align="center"> Directed Chemical Evolution via Navigating Molecular Encoding Space </h3> <p align="center"> 📃 <a href="https://doi.org/10.1002/advs.202513556" target="_blank">Paper</a> · 🤗 <a href="https://zhanglab.comp.nus.edu.sg/Ouroboros/" target="_blank">Model</a> · ...
952cb0eb877a97f081e79a204ee3cf8c032dd6580995fec5fec5fb22e888cd5e
Text
25,615
753
Pipeline RNA-seq === This pipeline describes all the steps to perform transcriptomic analyses on RNA-seq libraries. # Table of contents - [Overview](#overview) * [Read trimming](#read-trimming) * [Read mapping](#read-mapping) * [Assess strandeness of the library](#assess-strandeness-of-the-library) + [RSe...
0d1edd32867ef0e72f7b794c1c15d62a08cce924e590b7410bd9c52bd1621958
Text
26,058
343
# Kids First RNA-Seq Workflow V4 This is the Kids First RNA-Seq pipeline, which calculates gene and transcript isoform expression, detects fusions and splice junctions. We have transitioned to this current version which upgrades several software components. Our legacy workflow is still available as [v3.0.1](https://gi...
76a682a66bce33737eec8adfee89ee52ef9fd26e9de8c39f88c75ad207c610f4
Text
26,796
408
# rMATS turbo v4.4.0 [![Latest Release](https://img.shields.io/github/release/Xinglab/rmats-turbo.svg?label=Latest%20Release)](https://github.com/Xinglab/rmats-turbo/releases/latest) [![Total GitHub Downloads](https://img.shields.io/github/downloads/Xinglab/rmats-turbo/total.svg?label=Total%20GitHub%20Downloads)](http...
fe41fd2b0610db66c70e8acad880f30b28f475b95fdc69ce4fa3b6d5f6f5fa83
Text
26,911
406
<br/> <h1 align="center">ProtTrans</h1> <br/> <br/> [ProtTrans](https://github.com/agemagician/ProtTrans/) is providing **state of the art pre-trained models for proteins**. ProtTrans was trained on **thousands of GPUs from Summit** and **hundreds of Google TPUs** using various **Transformer models**. Have a look at...
fcae0f7766ad6c0ec7f2d8c5a16096e88d9c1a3321acb4859d5edd4f150a91ef
Text
28,120
303
![nemo_logo](website/images/logo_nemo_transparent_small.png) # NeMo 2.1 - Network Modification Tool Predict brain network disruption from a lesion mask. Original concept described in [Kuceyeski 2013](https://pubmed.ncbi.nlm.nih.gov/23855491/). **NEW!** Cloud interface for this tool can be used here: [https://kuceyeski...
5a8887aaa2b85b971df72d9f25fe2cbb9bffa5518fab7f563dc787cdf156b8e2
Text
28,490
874
[![View spider_plot on File Exchange](https://www.mathworks.com/matlabcentral/images/matlab-file-exchange.svg)](https://www.mathworks.com/matlabcentral/fileexchange/59561-spider_plot) [![Open in MATLAB Online](https://www.mathworks.com/images/responsive/global/open-in-matlab-online.svg)](https://matlab.mathworks.com/op...
6ee09014c0882a0ceba3db0ff27d77ca5165df0843d86614003a036a555c0e06
Text
31,291
424
[![Generic badge](https://img.shields.io/badge/Nucleic_Acids_Research_DOI-10.1093/nar/gkag145-green.svg)](https://doi.org/10.1093/nar/gkag145) [![DOI](https://zenodo.org/badge/942468189.svg)](https://doi.org/10.5281/zenodo.15185168) # Iterative Design of a NAND Hybrid Riboswitch by Deep Batch Bayesian Optimization Thi...
d6754b68da8fae70d2fb93b8100f41d55e2c0c262230c1017a053ad8154d85c1
Text
31,879
788
jieba ======== “结巴”中文分词:做最好的 Python 中文分词组件 "Jieba" (Chinese for "to stutter") Chinese text segmentation: built to be the best Python Chinese word segmentation module. - _Scroll down for English documentation._ 特点 ======== * 支持四种分词模式: * 精确模式,试图将句子最精确地切开,适合文本分析; * 全模式,把句子中所有的可以成词的词语都扫描出来, 速度非常快,但是不能解决歧义; ...
a661cc0c5fee0f5904498577d695fb7a3e139d8f64a908b005022c5fba15278c
Text
32,708
469
# DTI Playground DTI Playground is python based NIRAL pipeline software for diffusion MRI: preprocessing and quality control of diffusion weighted images, fiber profile extraction and analysis, and atlas building. It ships a web UI (DTIPlaygroundLab) and these command line tools: | Tool | Purpose | |---|---| | [`dmri...
cdd8ac84f44555750b8d61d04d46259ca9e2cb52b3d460b11a0323cad59e1a48
Text
32,898
875
.. This file is generated by setup.py Read and write TIFF files ========================= Tifffile is a comprehensive Python library to (1) store NumPy arrays in TIFF (Tagged Image File Format) files, and (2) read image and metadata from TIFF-like files used in bioimaging. Image and metadata can be read from TIFF...
5fe01b2fe422b0e7d16e770410dcaf03995f1b6e316f3c24e706e6a28cea791f
Text
36,237
259
# scATAC-benchmarking Recent innovations in single-cell Assay for Transposase Accessible Chromatin using sequencing (scATAC-seq) enable profiling of the epigenetic landscape of thousands of individual cells. scATAC-seq data analysis presents unique methodological challenges. scATAC-seq experiments sample DNA, which, d...
d485e86bb269b64c80ddd5b9e02d491d9aa8f1480f68c8a54ce3cd41420df4eb
Text
36,734
259
# TwiBot-22 This is the official repository of [TwiBot-22](https://twibot22.github.io/) @ NeurIPS 2022, Datasets and Benchmarks Track. This dataset is collected from the Twitter website before 2022. ### Introduction TwiBot-22 is the largest and most comprehensive Twitter bot detection benchmark to date. Specifical...
b4aec016ead1a42c648d677e28f89bf3f063ea752918be7c76dd9c2f8e82c5a7
Text
37,043
1,180
![FLYNC logo](logo.jpeg) # FLYNC - FLY Non-Coding gene discovery & classification ## TL;DR (Quick Start) **Platform**: Linux AMD64/x86_64 only (ARM64/Apple Silicon users: see Docker + Rosetta instructions) Install (conda recommended): ```bash conda create -n flync -c RFCDSantos flync conda activate flync ``` Setup...
d132d68c9a5c958a7df15b6b82cc5470596caf824e6215f734e022fa30ac6265
Text
38,062
1,007
# ChemGraph <details> <summary><strong>Overview</strong></summary> **ChemGraph** is an agentic framework that can automate molecular simulation workflows using large language models (LLMs). Built on top of `LangGraph` and `ASE`, ChemGraph allows users to perform complex computational chemistry tasks, from structure...
0e01c0e5ca7f1868e0c91406a9a0a8a9ea1e21f766fbc3c5d79f3d68e7ef259e
Text
38,434
302
<div align="center"> <p> <a href="https://www.ultralytics.com/yolo/yolo27?utm_source=github&utm_medium=social&utm_campaign=yolo27-launch-2026&utm_content=banner" target="_blank"> <img width="100%" src="https://raw.githubusercontent.com/ultralytics/assets/main/yolov8/banner-yolov8.png" alt="Ultralytics YOLO ...
6ed648555824c90de79d5898103be855f300534c405dd326144e6104da493663
Text
54,670
627
# OpenPedCan-analysis [![DOI](https://zenodo.org/badge/358689512.svg)](https://zenodo.org/badge/latestdoi/358689512) The Open Pediatric Cancer (OpenPedCan) project is an open analysis effort that harmonizes pediatric cancer data from multiple sources, performs downstream cancer analyses on these data and provides them...
9f87937c05b082202ee4d2bfd4bd5dc243eca94494c2d804eda988498042a70b
Text
98,405
2,276
If you use this software, please cite our work. ``` r citation("Tjazi") ``` ## ## To cite Tjazi in publications use: ## ## Bastiaanssen TFS, Quinn TP, Loughman A (2022) Treating Bugs as ## Features: A compositional guide to the statistical analysis of the ## microbiome-gut-brain axis. ...
3d3cbaaf394061039da1595c5e30b4c8775332fae772868c6694b2251c66f209
TypeScript
89
3
import CommandExplainer from "./CommandExplainer.vue"; export default CommandExplainer;
888d54bbbddff9b9c7628fcd5a8985a6bc4a5b2d20ffe526035e602e1378999a
TypeScript
97
5
// Copyright (C) CVAT.ai Corporation // // SPDX-License-Identifier: MIT declare module '*.svg';
64f098926a0b0d0f86050782c91ac9fadfc48aa36140b492d8d2bc0abfc82574
TypeScript
118
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for compiler generated dependencies management for cfunc_lprec.
6af5da24b447c1b123cd6c969f1ca2f125f9f10e7a0b7da1c38c730ff9d88382
TypeScript
118
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for compiler generated dependencies management for CATERPillar.
ed8ee27ed91a63488ecb997d77b85765c44945244ff6843e69bc6a6efd5b2913
TypeScript
119
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for compiler generated dependencies management for cfunc_filter.
1a498cd4666e5721cbd9ff5effeb9d324ef6b334d6447599030d3e198204221f
TypeScript
120
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for compiler generated dependencies management for cfunc_linerec.
9e174d5847130dd8906c4ab88da4018e7c5b923e8814d44a45ace30979becef0
TypeScript
122
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for compiler generated dependencies management for cfunc_lprecfp16.
33d81bc49677aae530d128893341b4bc87df296067aacaf2f8d35e5ec89baaf6
TypeScript
123
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for compiler generated dependencies management for cfunc_fourierrec.
67922c9c5d5750be5796ac46c36a86cf7d37c741ecf302f0bce060b396b84ae4
TypeScript
123
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for custom commands dependencies management for CATERPillar_autogen.
f9280d6d8e8d0f73e995f93c29baadefd40046c7cc1778e161558f9de04e8b05
TypeScript
123
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for compiler generated dependencies management for cfunc_filterfp16.
ceaa76b90b2329dd2248a5d611fd143791fe15e1cdda2c84061eb90755ab4fe1
TypeScript
124
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for compiler generated dependencies management for cfunc_linerecfp16.
be1e2ff5016424b04019bf6e6792ce36f556c0d822042fca66c348c0a3a6bb77
TypeScript
127
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for compiler generated dependencies management for cfunc_fourierrecfp16.
5a4ee09952f5620cc7144c2fbb3c9c09e72e37e93a60db710c80358b8f93fb6f
TypeScript
132
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for custom commands dependencies management for cfunc_lprec_swig_compilation.
e2cae603f50bfb8961ed82027a0edd483458ea9c4c736f36eae441325dd58199
TypeScript
133
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for custom commands dependencies management for cfunc_filter_swig_compilation.
45d08fbbd901ec3c075a0e3be3efa660eda7ea406773fe42767db88074697447
TypeScript
134
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for custom commands dependencies management for cfunc_linerec_swig_compilation.
fcafe3ccd9e50e1fd5228fac61915eb38ebca1b019370b19c6eb1271c29d1506
TypeScript
136
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for custom commands dependencies management for cfunc_lprecfp16_swig_compilation.
11a59f3da5c26e511e1b449579d90d1c575b6dd8ca23666919280bbaf41f7fbb
TypeScript
137
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for custom commands dependencies management for cfunc_fourierrec_swig_compilation.
71de24761781d0aef4f64f93708b8ce1bb0fc5fe039c5cf4092cb83aa9b2567c
TypeScript
137
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for custom commands dependencies management for cfunc_filterfp16_swig_compilation.
4c7e845095d0f193fc2d2ad9a2cbba284a8dc1706e9047ffc7fa1a48ab79f2fd
TypeScript
138
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for custom commands dependencies management for CATERPillar_autogen_timestamp_deps.
c8c47e1bb57be30a6e13f76acdd4a95d427a48288d396bd0ce8a8d228d8688e6
TypeScript
138
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for custom commands dependencies management for cfunc_linerecfp16_swig_compilation.
86b60fec3d68121575b1dbb1d4414963239a1c30f0e0ffe0e4be585003d922ee
TypeScript
141
2
# CMAKE generated file: DO NOT EDIT! # Timestamp file for custom commands dependencies management for cfunc_fourierrecfp16_swig_compilation.
480cfad27bb3ef430779b9c751de25d2f72da6aea9ded08739ea3a0446c14d65
TypeScript
149
8
// Copyright (C) CVAT.ai Corporation // // SPDX-License-Identifier: MIT export interface TimePeriod { startDate: string; endDate: string; }
7056369b02b7addcc2a23b2eb1e61d4ed1669aa43ee7524cd7aa30affc82bd68
TypeScript
178
8
// Copyright (C) 2020-2022 Intel Corporation // Copyright (C) CVAT.ai Corporation // // SPDX-License-Identifier: MIT import 'redux-thunk/extend-redux'; declare module '*.svg';
ed270bc8b0fb2672fb89390ddecc711596bdb7bd5257ec6571996bd7a4cac6ec
TypeScript
183
6
// Copyright (C) CVAT.ai Corporation // // SPDX-License-Identifier: MIT export { fetchAndAssembleAudio } from './audio-data'; export type { AssembledAudioData } from './audio-data';
45b6f701785680f9cb4e64af018c325e69145eb6aa23be824e9a4b29753d8312
TypeScript
186
8
import { defineConfig } from 'cypress' export default defineConfig({ e2e: { specPattern: 'cypress/e2e/**/*.{cy,spec}.{js,jsx,ts,tsx}', baseUrl: 'http://localhost:4173' } })
0459cb99dabd8c238bef6a6b4b99af8e4d2175462eaca793853b7cb1e6aee996
TypeScript
191
8
// https://docs.cypress.io/api/introduction/api.html describe('My First Test', () => { it('visits the app root url', () => { cy.visit('/') cy.contains('h1', 'You did it!') }) })
361d3a06044b035a87fdc43bed0f3f2ed7801884a4277f7509abe4d9aed6edef
TypeScript
192
6
// Copyright (C) CVAT.ai Corporation // // SPDX-License-Identifier: MIT export { default as ObjectState } from 'cvat-core/src/object-state'; export { ObjectType } from 'cvat-core/src/enums';
2e9cd2770e2304de6611e7ec14c5ad2017d61b8c4117a9d6256c6be99293d561
TypeScript
198
14
// Copyright (C) CVAT.ai Corporation // // SPDX-License-Identifier: MIT const dimensions = { xs: 24, sm: 24, md: 24, lg: 22, xl: 20, xxl: 16, }; export default dimensions;
0b73a22434d4474beeec366ff2b6b7b152e7db25889145c1135b3eb7e5dcde46
TypeScript
206
8
// Copyright (C) 2020-2022 Intel Corporation // Copyright (C) CVAT.ai Corporation // // SPDX-License-Identifier: MIT export function isDev(): boolean { return process.env.NODE_ENV === 'development'; }
f75f28061ecd6ca1225b751fa060d5fe0f50e775bcbbf45d0f225e96d363ba72
TypeScript
244
9
// Copyright (C) CVAT.ai Corporation // // SPDX-License-Identifier: MIT export function handleDropdownKeyDown(event: React.KeyboardEvent): void { if (['ArrowUp', 'ArrowDown'].includes(event.key)) { event.stopPropagation(); } }
f004e390ee2edbecd975eea36e55a46069144c194c6f37e0daa2ee8ac7b67723
TypeScript
247
7
// Copyright (C) CVAT.ai Corporation // // SPDX-License-Identifier: MIT export function anySearch<Type extends object>(obj: Type): boolean { return Object.keys(obj).some((value: string) => value !== 'page' && (obj as any)[value] !== null); }
30141420c358dce837848d32fa38c02281ae12e4f343a3e631dae84d5f571187
TypeScript
253
8
// Copyright (C) CVAT.ai Corporation // // SPDX-License-Identifier: MIT export function getTabFromHash(supportedTabs: string[]): string { const tab = window.location.hash.slice(1); return supportedTabs.includes(tab) ? tab : supportedTabs[0]; }
fdd4eaef5f9fe7c62dbd9c3e3e011f9065b2a6fb88a6f24ff3744112963a9d98
TypeScript
261
13
import { createApp } from "vue"; import App from "./App.vue"; import router from "./router"; import ElementPlus from "element-plus"; import "element-plus/dist/index.css"; const app = createApp(App); app.use(router); app.use(ElementPlus); app.mount("#app");
fa940d7523ee658cff8cc695ccbd34410c70eedf4d1f37e27757504a398aa55b
TypeScript
280
7
import { KeyMap } from './mousetrap-react'; export function subKeyMap(componentShortcuts: KeyMap, keyMap: KeyMap): KeyMap { return Object.fromEntries( Object.keys(componentShortcuts).filter((key) => !!keyMap[key]).map((key) => [key, keyMap[key]]), ) as KeyMap; }
fd3e89498351357650a56636a1eae369d8121179c913caed1c33cf5056008a66
TypeScript
289
11
import { Routes } from '@angular/router'; import { ProjectPageComponent } from '@pages/projects/project-page.component'; /** * Contains the routes for the components of the AppModule. */ export const routes: Routes = [ { path: 'projects/:id', component: ProjectPageComponent } ];
b93d12a42d41f2178c6595018a287f74b02ca3bf6b5f06cfe7a82087aa4e9d4d
TypeScript
330
11
import { describe, it, expect } from 'vitest' import { mount } from '@vue/test-utils' import HelloWorld from '../HelloWorld.vue' describe('HelloWorld', () => { it('renders properly', () => { const wrapper = mount(HelloWorld, { props: { msg: 'Hello Vitest' } }) expect(wrapper.text()).toContain('Hello Vitest'...
c3435837b325d8392fe51ab4b46047b4522d4652b2d7489031d401086865b1a7
TypeScript
351
10
// Copyright (C) CVAT.ai Corporation // // SPDX-License-Identifier: MIT import type { CombinedState } from 'reducers'; export default function getHiddenZLayers(state: CombinedState): Set<number> { const frame = state.annotation.player.frame.number; return state.annotation.annotations.zLayer.hiddenByFrame.get(...
e08783d71870b59dbac4834e7a391b362a8c0710a0382b67ff3c44743c0873e6
TypeScript
360
15
/** * Represents the interface for the event that is triggered when the value of an input element changes. */ export interface HTMLInputEvent extends Event { // #region Fields /** * Contains the target of the event, which is the input element that triggered the event. */ target: HTMLInputElem...