{"__v":0,"_id":"57989b5a209a6e0e00b8336f","category":{"__v":0,"_id":"57989a8817ced017003c4c69","project":"57618347b65324200072d6a5","version":"57618347b65324200072d6a8","sync":{"url":"","isSync":false},"reference":false,"createdAt":"2016-07-27T11:27:04.750Z","from_sync":false,"order":3,"slug":"docstrings","title":"Documentation"},"parentDoc":null,"project":"57618347b65324200072d6a5","user":"57617c8caa540f3600bfed20","version":{"__v":8,"_id":"57618347b65324200072d6a8","project":"57618347b65324200072d6a5","createdAt":"2016-06-15T16:33:11.587Z","releaseDate":"2016-06-15T16:33:11.587Z","categories":["57618347b65324200072d6a9","5761912d207db7170022fbe9","57619455a7c9f729009a74e0","576e8ae1f37ab41700147471","5797b8e5209a6e0e00b8321b","57989a8817ced017003c4c69","579ca6f3d46f960e0029a8ec","579ca703fefb1d0e00c94f06"],"is_deprecated":false,"is_hidden":false,"is_beta":false,"is_stable":true,"codename":"blobtools v0.9.19","version_clean":"0.9.19","version":"0.9.19"},"updates":[],"next":{"pages":[],"description":""},"createdAt":"2016-07-27T11:30:34.639Z","link_external":false,"link_url":"","githubsync":"","sync_unique":"","hidden":false,"api":{"results":{"codes":[]},"settings":"","auth":"required","params":[],"url":""},"isReference":false,"order":1,"body":"[block:code]\n{\n  \"codes\": [\n    {\n      \"code\": \"usage: blobtools view    -i <BLOBDB> [-x <TAXRULE>] [--rank <TAXRANK>...] [--hits]\\n                            [--list <LIST>] [--out <OUT>] [--notable]\\n                            [--concoct] [--cov] [--experimental]\\n                            [--h|--help]\\n\\n    Options:\\n        --h --help                  show this\\n        -i, --input <BLOBDB>        BlobDB file (created with \\\"blobtools create\\\")\\n        -o, --out <OUT>             Output prefix\\n        -l, --list <LIST>           List of sequence names (file).\\n        -x, --taxrule <TAXRULE>     Taxrule used for computing taxonomy \\n        \\t\\t\\t\\t\\t\\t\\t\\t\\t\\t\\t\\t\\t\\t(supported: \\\"bestsum\\\", \\\"bestsumorder\\\")\\n                                    [default: bestsum]\\n        -r, --rank <TAXRANK>...     Taxonomic rank(s) at which output will be written.\\n                                    (supported: 'species', 'genus', 'family', 'order',\\n                                    'phylum', 'superkingdom', 'all') [default: phylum]\\n        -b, --hits                  Displays taxonomic hits from tax files \\n        \\t\\t\\t\\t\\t\\t\\t\\t\\t\\t\\t\\t\\t\\tthat contributed to the taxonomy.\\n        --concoct                   Generate concoct files [default: False]\\n        --cov                       Generate cov files [default: False]\\n        --experimental              Experimental output [default: False]\\n        -n, --notable               Do not generate table view [default: False]\\n\",\n      \"language\": \"text\"\n    }\n  ]\n}\n[/block]","excerpt":"","slug":"view","type":"basic","title":"view"}
[block:code] { "codes": [ { "code": "usage: blobtools view -i <BLOBDB> [-x <TAXRULE>] [--rank <TAXRANK>...] [--hits]\n [--list <LIST>] [--out <OUT>] [--notable]\n [--concoct] [--cov] [--experimental]\n [--h|--help]\n\n Options:\n --h --help show this\n -i, --input <BLOBDB> BlobDB file (created with \"blobtools create\")\n -o, --out <OUT> Output prefix\n -l, --list <LIST> List of sequence names (file).\n -x, --taxrule <TAXRULE> Taxrule used for computing taxonomy \n \t\t\t\t\t\t\t\t\t\t\t\t\t\t(supported: \"bestsum\", \"bestsumorder\")\n [default: bestsum]\n -r, --rank <TAXRANK>... Taxonomic rank(s) at which output will be written.\n (supported: 'species', 'genus', 'family', 'order',\n 'phylum', 'superkingdom', 'all') [default: phylum]\n -b, --hits Displays taxonomic hits from tax files \n \t\t\t\t\t\t\t\t\t\t\t\t\t\tthat contributed to the taxonomy.\n --concoct Generate concoct files [default: False]\n --cov Generate cov files [default: False]\n --experimental Experimental output [default: False]\n -n, --notable Do not generate table view [default: False]\n", "language": "text" } ] } [/block]