{"action":"created","issue":{"url":"https://api.github.com/repos/marcelm/cutadapt/issues/51","labels_url":"https://api.github.com/repos/marcelm/cutadapt/issues/51/labels{/name}","comments_url":"https://api.github.com/repos/marcelm/cutadapt/issues/51/comments","events_url":"https://api.github.com/repos/marcelm/cutadapt/issues/51/events","html_url":"https://github.com/marcelm/cutadapt/issues/51","id":61251242,"number":51,"title":"Remove adaptor from 5' end in color-space data","user":{"login":"marcelm","id":724864,"avatar_url":"https://avatars.githubusercontent.com/u/724864?v=3","gravatar_id":"","url":"https://api.github.com/users/marcelm","html_url":"https://github.com/marcelm","followers_url":"https://api.github.com/users/marcelm/followers","following_url":"https://api.github.com/users/marcelm/following{/other_user}","gists_url":"https://api.github.com/users/marcelm/gists{/gist_id}","starred_url":"https://api.github.com/users/marcelm/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/marcelm/subscriptions","organizations_url":"https://api.github.com/users/marcelm/orgs","repos_url":"https://api.github.com/users/marcelm/repos","events_url":"https://api.github.com/users/marcelm/events{/privacy}","received_events_url":"https://api.github.com/users/marcelm/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/marcelm/cutadapt/labels/enhancement","name":"enhancement","color":"84b6eb"},{"url":"https://api.github.com/repos/marcelm/cutadapt/labels/imported","name":"imported","color":"FFFFFF"},{"url":"https://api.github.com/repos/marcelm/cutadapt/labels/invalid","name":"invalid","color":"e6e6e6"}],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":1,"created_at":"2015-03-13T21:27:20Z","updated_at":"2015-03-13T21:27:24Z","closed_at":null,"body":"_From [szu...@gmail.com](https://code.google.com/u/103071318420061082760/) on April 16, 2012 17:44:27_\n\nWhat steps will reproduce the problem? 1. The option -g does not work with color-space data. The script says \"Using --anywhere or --front with color space reads is currently not supported  (if you think this may be useful, contact the author).\" What is the expected output? What do you see instead? Trimmed reads for 'de novo' RNA-Seq What version of the product are you using? On what operating system? v1.0 on Rocks Viper Please provide any additional information below. I'm working with the same datase using the new ECC module that allows you to convert color-space into base-space data and from that I know there are adaptors in the 5' end in my reads that should be removed prior the 'de novo' assembly of my data. I detected these adaptors using your tool with the reads in base-space but now I'd like to do the same process with the data in color-space but I'd need to removed the adaptor in the 5' end. Any ideas about how to perform 5' adaptor removal in color-space data?\r\n\r\nThanks very much in advance.\r\n\r\nSheila\n\n_Original issue: http://code.google.com/p/cutadapt/issues/detail?id=41_"},"comment":{"url":"https://api.github.com/repos/marcelm/cutadapt/issues/comments/79420488","html_url":"https://github.com/marcelm/cutadapt/issues/51#issuecomment-79420488","issue_url":"https://api.github.com/repos/marcelm/cutadapt/issues/51","id":79420488,"user":{"login":"marcelm","id":724864,"avatar_url":"https://avatars.githubusercontent.com/u/724864?v=3","gravatar_id":"","url":"https://api.github.com/users/marcelm","html_url":"https://github.com/marcelm","followers_url":"https://api.github.com/users/marcelm/followers","following_url":"https://api.github.com/users/marcelm/following{/other_user}","gists_url":"https://api.github.com/users/marcelm/gists{/gist_id}","starred_url":"https://api.github.com/users/marcelm/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/marcelm/subscriptions","organizations_url":"https://api.github.com/users/marcelm/orgs","repos_url":"https://api.github.com/users/marcelm/repos","events_url":"https://api.github.com/users/marcelm/events{/privacy}","received_events_url":"https://api.github.com/users/marcelm/received_events","type":"User","site_admin":false},"created_at":"2015-03-13T21:27:24Z","updated_at":"2015-03-13T21:27:24Z","body":"_From [marcel.m...@tu-dortmund.de](https://code.google.com/u/115749445199231802729/) on April 17, 2012 00:52:44_\n\nHow exactly do the adapters appear in the read? Let’s say the adapter has ten bases. Is it possible that a read contains only the last few bases of the adapter? The -g parameter allows this, but I’m still not sure whether this is the correct behavior, even for base-space data. Or will it be the case that the always (or almost always) starts with a full adapter sequence? \r\n\r\nCould you send me a few reads that contain 5' adapters and also tell me the adapter sequence in base space?\n\n**Labels:** -Type-Defect Type-Enhancement  \n"}}