{"id":13592443,"url":"https://github.com/kieranrcampbell/mfa","last_synced_at":"2025-12-25T11:06:37.777Z","repository":{"id":71097822,"uuid":"69252103","full_name":"kieranrcampbell/mfa","owner":"kieranrcampbell","description":"Probabilistic inference of single-cell bifurcations","archived":false,"fork":false,"pushed_at":"2022-03-21T16:43:11.000Z","size":79,"stargazers_count":5,"open_issues_count":0,"forks_count":3,"subscribers_count":6,"default_branch":"master","last_synced_at":"2024-08-02T16:44:52.579Z","etag":null,"topics":["bifurcation","factor-analysis","mixture-modelling","single-cell"],"latest_commit_sha":null,"homepage":null,"language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/kieranrcampbell.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null}},"created_at":"2016-09-26T13:20:29.000Z","updated_at":"2022-03-11T21:56:33.000Z","dependencies_parsed_at":"2023-08-28T21:16:21.573Z","dependency_job_id":null,"html_url":"https://github.com/kieranrcampbell/mfa","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/kieranrcampbell%2Fmfa","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/kieranrcampbell%2Fmfa/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/kieranrcampbell%2Fmfa/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/kieranrcampbell%2Fmfa/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/kieranrcampbell","download_url":"https://codeload.github.com/kieranrcampbell/mfa/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":223346759,"owners_count":17130495,"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":["bifurcation","factor-analysis","mixture-modelling","single-cell"],"created_at":"2024-08-01T16:01:09.281Z","updated_at":"2025-12-25T11:06:32.723Z","avatar_url":"https://github.com/kieranrcampbell.png","language":"R","funding_links":[],"categories":["Software packages"],"sub_categories":["RNA-seq"],"readme":"## mfa - Bayesian inference of bifurcations in single-cell data\n\n`mfa` is an R package implementing Gibbs sampling for a Bayesian hierarchichal mixture of factor analysers for inference of bifurcations in single-cell data.\n\n[![Build Status](https://travis-ci.org/kieranrcampbell/mfa.svg?branch=master)](https://travis-ci.org/kieranrcampbell/mfa) [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.345981.svg)](https://doi.org/10.5281/zenodo.345981)\n\n\n### Installation\n\n`mfa` may be installed either via Bioconductor (coming soon) or Github:\n\n#### Installation from Bioconductor\n```r\nif (!requireNamespace(\"BiocManager\", quietly=TRUE))\n    install.packages(\"BiocManager\")\nBiocManager::install(\"mfa\")\n```\n\n#### Installation from Github\n```r\ndevtools::install_github(\"kieranrcampbell/mfa\", build_vignettes = TRUE)\n```\n\n### Usage\n\nFor a cell-by-gene matrix of expression Y, MFA can be envoked via\n\n```r\nm \u003c- mfa(Y)\n```\n\nwhich will perform Gibbs sampling to infer pseudotimes, branch structure, and genes involved in the bifurcation.\n\nFor full usage see the package vignette:\n\n```r\nvignette('introduction_to_mfa')\n```\n\n### Authors\n\nKieran Campbell \u0026 Christopher Yau\n\nUniversity of Oxford\n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fkieranrcampbell%2Fmfa","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fkieranrcampbell%2Fmfa","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fkieranrcampbell%2Fmfa/lists"}