{"action":"created","issue":{"url":"https://api.github.com/repos/hammerlab/t-cell-data/issues/5","repository_url":"https://api.github.com/repos/hammerlab/t-cell-data","labels_url":"https://api.github.com/repos/hammerlab/t-cell-data/issues/5/labels{/name}","comments_url":"https://api.github.com/repos/hammerlab/t-cell-data/issues/5/comments","events_url":"https://api.github.com/repos/hammerlab/t-cell-data/issues/5/events","html_url":"https://github.com/hammerlab/t-cell-data/issues/5","id":316911736,"node_id":"MDU6SXNzdWUzMTY5MTE3MzY=","number":5,"title":"Exploring FlowRepository","user":{"login":"hammer","id":15233,"node_id":"MDQ6VXNlcjE1MjMz","avatar_url":"https://avatars2.githubusercontent.com/u/15233?v=4","gravatar_id":"","url":"https://api.github.com/users/hammer","html_url":"https://github.com/hammer","followers_url":"https://api.github.com/users/hammer/followers","following_url":"https://api.github.com/users/hammer/following{/other_user}","gists_url":"https://api.github.com/users/hammer/gists{/gist_id}","starred_url":"https://api.github.com/users/hammer/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/hammer/subscriptions","organizations_url":"https://api.github.com/users/hammer/orgs","repos_url":"https://api.github.com/users/hammer/repos","events_url":"https://api.github.com/users/hammer/events{/privacy}","received_events_url":"https://api.github.com/users/hammer/received_events","type":"User","site_admin":false},"labels":[{"id":881627083,"node_id":"MDU6TGFiZWw4ODE2MjcwODM=","url":"https://api.github.com/repos/hammerlab/t-cell-data/labels/dataset","name":"dataset","color":"73f952","default":false}],"state":"open","locked":false,"assignee":{"login":"hammer","id":15233,"node_id":"MDQ6VXNlcjE1MjMz","avatar_url":"https://avatars2.githubusercontent.com/u/15233?v=4","gravatar_id":"","url":"https://api.github.com/users/hammer","html_url":"https://github.com/hammer","followers_url":"https://api.github.com/users/hammer/followers","following_url":"https://api.github.com/users/hammer/following{/other_user}","gists_url":"https://api.github.com/users/hammer/gists{/gist_id}","starred_url":"https://api.github.com/users/hammer/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/hammer/subscriptions","organizations_url":"https://api.github.com/users/hammer/orgs","repos_url":"https://api.github.com/users/hammer/repos","events_url":"https://api.github.com/users/hammer/events{/privacy}","received_events_url":"https://api.github.com/users/hammer/received_events","type":"User","site_admin":false},"assignees":[{"login":"hammer","id":15233,"node_id":"MDQ6VXNlcjE1MjMz","avatar_url":"https://avatars2.githubusercontent.com/u/15233?v=4","gravatar_id":"","url":"https://api.github.com/users/hammer","html_url":"https://github.com/hammer","followers_url":"https://api.github.com/users/hammer/followers","following_url":"https://api.github.com/users/hammer/following{/other_user}","gists_url":"https://api.github.com/users/hammer/gists{/gist_id}","starred_url":"https://api.github.com/users/hammer/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/hammer/subscriptions","organizations_url":"https://api.github.com/users/hammer/orgs","repos_url":"https://api.github.com/users/hammer/repos","events_url":"https://api.github.com/users/hammer/events{/privacy}","received_events_url":"https://api.github.com/users/hammer/received_events","type":"User","site_admin":false}],"milestone":null,"comments":15,"created_at":"2018-04-23T17:38:02Z","updated_at":"2018-11-21T17:30:10Z","closed_at":null,"author_association":"MEMBER","body":"https://flowrepository.org has an API! https://flowrepository.org/images/pdf/FlowRepositoryAPI.pdf"},"comment":{"url":"https://api.github.com/repos/hammerlab/t-cell-data/issues/comments/440749057","html_url":"https://github.com/hammerlab/t-cell-data/issues/5#issuecomment-440749057","issue_url":"https://api.github.com/repos/hammerlab/t-cell-data/issues/5","id":440749057,"node_id":"MDEyOklzc3VlQ29tbWVudDQ0MDc0OTA1Nw==","user":{"login":"hammer","id":15233,"node_id":"MDQ6VXNlcjE1MjMz","avatar_url":"https://avatars2.githubusercontent.com/u/15233?v=4","gravatar_id":"","url":"https://api.github.com/users/hammer","html_url":"https://github.com/hammer","followers_url":"https://api.github.com/users/hammer/followers","following_url":"https://api.github.com/users/hammer/following{/other_user}","gists_url":"https://api.github.com/users/hammer/gists{/gist_id}","starred_url":"https://api.github.com/users/hammer/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/hammer/subscriptions","organizations_url":"https://api.github.com/users/hammer/orgs","repos_url":"https://api.github.com/users/hammer/repos","events_url":"https://api.github.com/users/hammer/events{/privacy}","received_events_url":"https://api.github.com/users/hammer/received_events","type":"User","site_admin":false},"created_at":"2018-11-21T17:30:10Z","updated_at":"2018-11-21T17:30:10Z","author_association":"MEMBER","body":"Some thoughts on the OMIP-021 analysis:\r\n- How flow works: paragraph + references\r\n- FCS file format: paragraph + references\r\n- Better document the standard flow processing pipeline: e.g. compensation, logicle_trans()\r\n- Link to documentation on how gating is done w/ openCyto: singletGate, polyGate, flowClust.2d\r\n- Construct the gating template as a tibble, then use `readr::format_csv` + `textConnection` to avoid the temporary file (though the `textConnection` is not necessary, I just find its existence interesting)\r\n\r\nSome thoughts on OMIP-030 analysis:\r\n- It would be nice to have HGNC names in addition to the CD names\r\n- The heatmap of K-S statistics is a very interesting way to display how informative each marker is for each T cell subset. I wonder if we can get a better visualization of the distribution of values across single cells for each marker in each subset too? We probably need Plotly or even Shiny to make it slightly interactive. Something like each T cell subset on a row with Sina plots for each marker?\r\n\r\nWant to send a PR over for the OMIP-030 analysis?\r\n\r\nThanks again for the great work!"}}
{"actor":{"display_login":"hammer"}}