{"id":37890076,"url":"https://github.com/bunpc/vasculardataviz","last_synced_at":"2026-01-16T16:55:40.724Z","repository":{"id":110611095,"uuid":"222740263","full_name":"BUNPC/vascularDataViz","owner":"BUNPC","description":null,"archived":false,"fork":false,"pushed_at":"2020-08-13T23:50:58.000Z","size":191,"stargazers_count":1,"open_issues_count":0,"forks_count":0,"subscribers_count":0,"default_branch":"master","last_synced_at":"2025-09-09T20:41:23.254Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":null,"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/BUNPC.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,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null,"notice":null,"maintainers":null,"copyright":null,"agents":null,"dco":null,"cla":null}},"created_at":"2019-11-19T16:28:15.000Z","updated_at":"2020-08-20T19:02:41.000Z","dependencies_parsed_at":"2023-07-20T23:30:59.774Z","dependency_job_id":null,"html_url":"https://github.com/BUNPC/vascularDataViz","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/BUNPC/vascularDataViz","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/BUNPC%2FvascularDataViz","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/BUNPC%2FvascularDataViz/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/BUNPC%2FvascularDataViz/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/BUNPC%2FvascularDataViz/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/BUNPC","download_url":"https://codeload.github.com/BUNPC/vascularDataViz/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/BUNPC%2FvascularDataViz/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":28480081,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-01-16T11:59:17.896Z","status":"ssl_error","status_checked_at":"2026-01-16T11:55:55.838Z","response_time":107,"last_error":"SSL_read: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"can_crawl_api":true,"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":"2026-01-16T16:55:39.953Z","updated_at":"2026-01-16T16:55:40.716Z","avatar_url":"https://github.com/BUNPC.png","language":null,"funding_links":[],"categories":[],"sub_categories":[],"readme":"# Discription:\nThis app helps to visualize pO2pts, stalling segments on angiogram and get branch order statistics for that data.\n\n# input:\nAngiogram volume \u003cbr/\u003e\nA file name is provided for a MAT or TIF file that contains the volumetric image of the angiogram. This is generally the angiogram image file and not a segmented angiogram.\n\nGraph file \u003cbr/\u003e\nA file name is provided for a MAT file that contains the graph information with the following fields: \u003cbr/\u003e\nGraph.nodes [Nx3] - This is the 3D position of each of the N nodes in the graph \u003cbr/\u003e\nGraph.edges [Mx2] - This is the list of M edges giving the index for each of the 2 nodes connected by the given edge. \u003cbr/\u003e\nGraph.diam [Nx1] - This is the diameter at each node in units of micrometers. \u003cbr/\u003e\nGraph.nodeType [Nx1] - This indicates whether a node is an artery (1), a capillary (2), or a vein(3). This is optional in the input file. \u003cbr/\u003e\nGraph.segInfo - This is a data structure that contains information about the nodes and edges contained in each vascular segment.\n\nOCT stall data \u003cbr/\u003e\nThis is the output saved from capStallGUI. \u003cbr/\u003e\nThe input has 5 variables: \u003cbr/\u003e\nCap [Nx2] - contains 2D coordinates of the capillary stall points in the MIP coordinate system \u003cbr/\u003e\nPts [Nx3] - contains 3D coordinates of the capillary stall points in the 3D average volume \u003cbr/\u003e\nSeg [Nx1]- is a structure data type. \u003cbr/\u003e\nSeg.pos [MX3]- contains positions of the capillary segment. Note that the number of node points M generally differs for each capillary segment. \u003cbr/\u003e\nSeg.mask [Px1] - contains a list of indices into the volume image indicating the voxels corresponding to the masked capillary segment. \u003cbr/\u003e\nInt_ts [N*T] - contains the intensity time series of each segment averaged over the list of Seg.mask voxels for the given segment. \u003cbr/\u003e\nStallingMatrix [N*T] - is binary matrix with stalls indicated as 1 and non-stalls as 0. This is the famous stall-o-gram. \u003cbr/\u003e\nN - number of stalling capillary segments \u003cbr/\u003e\nT - number of images in the time series\n\npO2 Data \u003cbr/\u003e\nThis is pO2 points information\npO2pts [Nx3] - contains 3D coordinates of pO2 pts in the measured volume. \u003cbr/\u003e\nN - number of po2 pts measured\n\n# Output:\nGraph.pO2ptsBO -                            \u003cbr/\u003e\nGraph.IntrapO2ptspath -\n\n\n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbunpc%2Fvasculardataviz","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fbunpc%2Fvasculardataviz","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbunpc%2Fvasculardataviz/lists"}