{"id":19448522,"url":"https://github.com/neurodata/graphstats","last_synced_at":"2025-04-25T02:31:23.230Z","repository":{"id":87065047,"uuid":"113899611","full_name":"neurodata/graphstats","owner":"neurodata","description":"A package for graph statistics","archived":false,"fork":false,"pushed_at":"2018-10-24T22:40:46.000Z","size":42604,"stargazers_count":3,"open_issues_count":8,"forks_count":2,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-04-03T15:04:55.969Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"gpl-3.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/neurodata.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":"citation.bib","codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2017-12-11T19:29:33.000Z","updated_at":"2018-11-02T22:33:50.000Z","dependencies_parsed_at":null,"dependency_job_id":"a6c9720e-8d88-4561-a71e-f78f86329c2b","html_url":"https://github.com/neurodata/graphstats","commit_stats":null,"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neurodata%2Fgraphstats","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neurodata%2Fgraphstats/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neurodata%2Fgraphstats/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/neurodata%2Fgraphstats/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/neurodata","download_url":"https://codeload.github.com/neurodata/graphstats/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":250741930,"owners_count":21479701,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":[],"created_at":"2024-11-10T16:27:21.788Z","updated_at":"2025-04-25T02:31:23.224Z","avatar_url":"https://github.com/neurodata.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Graphstats\n\nA package for graph statistical algorithms.\n\n- [Overview](#overview)\n- [Repo Contents](#repo-contents)\n- [System Requirements](#system-requirements)\n- [Installation Guide](#installation-guide)\n- [Demo](#demo)\n- [Usage](#usage)\n- [License](./LICENSE)\n- [Issues](https://github.com/neurodata/graphstats/issues)\n\n# Overview\n\nA graph, or network, provides a mathematically intuitive representation of data with some sort of relationship between items. For example, a social network can be represented as a graph by considering all participants in the social network as nodes, with connections representing whether each pair of individuals in the network are friends with one another. Naively, one might apply traditional statistical techniques to a graph, which neglects the spatial arrangement of nodes within the network and is not utilizing all of the information present in the graph. In this package, we provide utilities and algorithms designed for the processing and analysis of graphs with specialized graph statistical algorithms.\n\n# Repo Contents\n\n- [R](./R): `R` package code.\n- [docs](./docs): package documentation.\n- [man](./man): package manual for help in R session.\n- [tests](./tests): `R` unit tests written using the `testthat` package.\n- [vignettes](./vignettes): `R` vignettes for R session html help pages.\n\n# System Requirements\n\n## Hardware Requirements\n\nThe `graphstats` package requires only a standard computer with enough RAM to support the operations defined by a user. For minimal performance, this will be a computer with about 2 GB of RAM. For optimal performance, we recommend a computer with the following specs:\n\nRAM: 16+ GB  \nCPU: 4+ cores, 3.3+ GHz/core\n\nThe runtimes below are generated using a computer with the recommended specs (16 GB RAM, 4 cores@3.3 GHz) and internet of speed 25 Mbps.\n\n## Software Requirements\n\n### OS Requirements\n\nThis package is supported for *Linux* operating systems. The package has been tested on the following systems:\n\nLinux: Ubuntu 16.04  \nMac OSX:  \nWindows:  \n\nBefore setting up the `graphstats` package, users should have `R` version 3.4.0 or higher, and several packages set up from CRAN.\n\n#### Installing R version 3.4.2 on Ubuntu 16.04\n\nthe latest version of R can be installed by adding the latest repository to `apt`:\n\n```\nsudo echo \"deb http://cran.rstudio.com/bin/linux/ubuntu xenial/\" | sudo tee -a /etc/apt/sources.list\ngpg --keyserver keyserver.ubuntu.com --recv-key E084DAB9\ngpg -a --export E084DAB9 | sudo apt-key add -\nsudo apt-get update\nsudo apt-get install r-base r-base-dev\n```\n\nwhich should install in about 20 seconds.\n\nIf you are having an issue that you believe to be tied to software versioning issues, please drop us an [Issue](https://github.com/neurodata/graphstats/issues). \n\n# Installation Guide\n\nFrom an `R` session, type:\n\n```\nrequire(devtools)\ninstall_github('neurodata/graphstats', build_vignettes=TRUE)  # install graphstats with the vignettes\nrequire(graphstats)  # source the package now that it is set up\nvignette(\"siem\", package=\"graphstats\")  # view one of the basic vignettes\n```\n\nThe package should take approximately 20 seconds to install with vignettes on a recommended computer. \n\n\n# Demo\n\nFor interactive demos of the functions, please check out the vignettes built into the package. They can be accessed as follows:\n\n\n## SIEM\n\n```\nrequire(graphstats)\nvignette('siem')\n```\n\nwith a more in-depth demo found at [SIEM model](http://docs.neurodata.io/graphstats/siem/siem.html).\n\n# Usage\n\nBelow, we provide several real applications of functions in the `graphstats` pacakge.\n\n## SIEM\n\n+ fMRI/dMRI connectomics  \n    - [within-modality ipsi vs contra-lateral connectivity](http://docs.neurodata.io/graphstats/siem/hemisphere_within.html)\n    - [between-modality ipsi vs contra-lateral connectivity](http://docs.neurodata.io/graphstats/siem/hemisphere_across.html)\n    - [within-modality homo vs heterotopic connectivity](http://docs.neurodata.io/graphstats/siem/bilateral_within.html)\n    - [between-modality homo vs heterotopic connectivity](http://docs.neurodata.io/graphstats/siem/bilateral_across.html)\n    - [bilateral batch effects](http://docs.neurodata.io/graphstats/siem/batch_bil.html)\n    - [hemispheric batch effects](http://docs.neurodata.io/graphstats/siem/batch_hem.html)\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fneurodata%2Fgraphstats","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fneurodata%2Fgraphstats","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fneurodata%2Fgraphstats/lists"}