{"action":"created","issue":{"url":"https://api.github.com/repos/benjjneb/dada2/issues/91","repository_url":"https://api.github.com/repos/benjjneb/dada2","labels_url":"https://api.github.com/repos/benjjneb/dada2/issues/91/labels{/name}","comments_url":"https://api.github.com/repos/benjjneb/dada2/issues/91/comments","events_url":"https://api.github.com/repos/benjjneb/dada2/issues/91/events","html_url":"https://github.com/benjjneb/dada2/issues/91","id":165067412,"number":91,"title":"Out of memory..","user":{"login":"mtsiknia","id":9335419,"avatar_url":"https://avatars.githubusercontent.com/u/9335419?v=3","gravatar_id":"","url":"https://api.github.com/users/mtsiknia","html_url":"https://github.com/mtsiknia","followers_url":"https://api.github.com/users/mtsiknia/followers","following_url":"https://api.github.com/users/mtsiknia/following{/other_user}","gists_url":"https://api.github.com/users/mtsiknia/gists{/gist_id}","starred_url":"https://api.github.com/users/mtsiknia/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mtsiknia/subscriptions","organizations_url":"https://api.github.com/users/mtsiknia/orgs","repos_url":"https://api.github.com/users/mtsiknia/repos","events_url":"https://api.github.com/users/mtsiknia/events{/privacy}","received_events_url":"https://api.github.com/users/mtsiknia/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":1,"created_at":"2016-07-12T12:25:27Z","updated_at":"2016-07-13T04:08:41Z","closed_at":null,"body":"Hi!!\r\nFirst of all, thank you for dada2!!\r\nI want to use dada2 pipeline for my project (I have 113 samples for 16S) but my laptop's ram (8GB) is not enough for analyzing all samples at once. I was wondering if I can separately run my samples in groups of 20-25 and then combine the outputs, but I'm not sure if there will be a problem with that, in terms of algorithm's logic.\r\nIt may be a silly question but I'm not very familiar with programming, I'm just a user..\r\nThank you for your time!!\r\nBest regards,\r\nMyrto"},"comment":{"url":"https://api.github.com/repos/benjjneb/dada2/issues/comments/232251608","html_url":"https://github.com/benjjneb/dada2/issues/91#issuecomment-232251608","issue_url":"https://api.github.com/repos/benjjneb/dada2/issues/91","id":232251608,"user":{"login":"benjjneb","id":5797204,"avatar_url":"https://avatars.githubusercontent.com/u/5797204?v=3","gravatar_id":"","url":"https://api.github.com/users/benjjneb","html_url":"https://github.com/benjjneb","followers_url":"https://api.github.com/users/benjjneb/followers","following_url":"https://api.github.com/users/benjjneb/following{/other_user}","gists_url":"https://api.github.com/users/benjjneb/gists{/gist_id}","starred_url":"https://api.github.com/users/benjjneb/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/benjjneb/subscriptions","organizations_url":"https://api.github.com/users/benjjneb/orgs","repos_url":"https://api.github.com/users/benjjneb/repos","events_url":"https://api.github.com/users/benjjneb/events{/privacy}","received_events_url":"https://api.github.com/users/benjjneb/received_events","type":"User","site_admin":false},"created_at":"2016-07-13T04:08:41Z","updated_at":"2016-07-13T04:08:41Z","body":"Hi Myrto,\r\nYes, it it completely possible to process samples in batches, or really even individually.\r\n\r\nWhat I would recommend is that you use a subset of your samples to estimate the error rate parameters on your data (i.e. run dada(..., selfConsist=TRUE)), and then use those estimated error rates to run all of your samples. In that way you can keep memory requirements very low.\r\n\r\nThen, at the end, use `makeSequenceTable` on all of the processed samples, and you're done."}}
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