{"action":"closed","issue":{"url":"https://api.github.com/repos/davidaknowles/leafcutter/issues/66","repository_url":"https://api.github.com/repos/davidaknowles/leafcutter","labels_url":"https://api.github.com/repos/davidaknowles/leafcutter/issues/66/labels{/name}","comments_url":"https://api.github.com/repos/davidaknowles/leafcutter/issues/66/comments","events_url":"https://api.github.com/repos/davidaknowles/leafcutter/issues/66/events","html_url":"https://github.com/davidaknowles/leafcutter/issues/66","id":322838251,"number":66,"title":"LeafViz pca plot axis query ","user":{"login":"drevansa","id":12700047,"avatar_url":"https://avatars1.githubusercontent.com/u/12700047?v=4","gravatar_id":"","url":"https://api.github.com/users/drevansa","html_url":"https://github.com/drevansa","followers_url":"https://api.github.com/users/drevansa/followers","following_url":"https://api.github.com/users/drevansa/following{/other_user}","gists_url":"https://api.github.com/users/drevansa/gists{/gist_id}","starred_url":"https://api.github.com/users/drevansa/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/drevansa/subscriptions","organizations_url":"https://api.github.com/users/drevansa/orgs","repos_url":"https://api.github.com/users/drevansa/repos","events_url":"https://api.github.com/users/drevansa/events{/privacy}","received_events_url":"https://api.github.com/users/drevansa/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":1,"created_at":"2018-05-14T14:20:50Z","updated_at":"2018-05-14T14:50:21Z","closed_at":"2018-05-14T14:50:21Z","author_association":"NONE","body":"Hello there,\r\nI think there may be an issue with the LeafViz PCA plots generated from LeafCutter prepare_results.R RData set?\r\n\r\nLeafViz plot for PC 1\r\n[LeafViz_PCA_PC1_vs_PC2_query_1.pdf](https://github.com/davidaknowles/leafcutter/files/2001103/LeafViz_PCA_PC1_vs_PC2_query_1.pdf)\r\n\r\nPCA results from the same RDataset:\r\n\r\nGroup  PC1        PC2\r\nWAT  20.16620  -8.995684\r\nWAT  20.81406  -4.443752\r\nWAT  24.28214  -8.657540\r\nWAT  23.91210 -11.858298\r\nOAT -11.48259   2.032016\r\nOAT -80.67444 -24.706885\r\nOAT -12.14841  71.577739\r\nWAT  17.91700  -4.975584\r\nOAT -13.92228   5.285461\r\nWAT  11.13622 -15.257471\r\n\r\nsummary(pca[[1]][1:2])\r\n      PC1              PC2          \r\n Min.   :-80.67   Min.   :-24.7069  \r\n 1st Qu.:-11.98   1st Qu.:-11.1426  \r\n Median : 14.53   Median : -6.8166  \r\n Mean   :  0.00   Mean   :  0.0000  \r\n 3rd Qu.: 20.65   3rd Qu.:  0.4131  \r\n Max.   : 24.28   Max.   : 71.5777  \r\n\r\nSo, I was expecting something like this (group labels modified):\r\n[LeafCutter_RData_PCA_PC1_vs_PC2_query_1.pdf](https://github.com/davidaknowles/leafcutter/files/2001113/LeafCutter_RData_PCA_PC1_vs_PC2_query_1.pdf)\r\n\r\nBest wishes\r\nDrevansa\r\n\r\n"}}
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