{"id":1368,"date":"2020-07-26T22:07:14","date_gmt":"2020-07-26T13:07:14","guid":{"rendered":"http:\/\/home.hiroshima-u.ac.jp\/~tigawa\/?p=1368"},"modified":"2020-07-26T22:07:14","modified_gmt":"2020-07-26T13:07:14","slug":"atbenchnanopore%e3%81%aepore%e7%8a%b6%e6%85%8b%e3%81%ab%e3%81%a4%e3%81%84%e3%81%a6%e3%81%ae%e3%81%be%e3%81%a8%e3%82%81","status":"publish","type":"post","link":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/?p=1368","title":{"rendered":"[atbench]Nanopore\u306epore\u72b6\u614b\u306b\u3064\u3044\u3066\u306e\u307e\u3068\u3081"},"content":{"rendered":"<p>PDF\u3067\u51fa\u529b\u3055\u308c\u308b\u6642\u7cfb\u5217\u306epore state\u306e\u30b0\u30e9\u30d5\u3092\u30e9\u30f3\u5b9f\u65bd\u5f8c\u306b\u884c\u3046\u969b\u306b\u306fduty_time__####.csv\u3092\u4f7f\u3046\u3053\u3068\u306b\u306a\u308b\u306e\u3060\u304c\u3001state\u306e\u8a18\u8ff0\u304c\u9055\u3046\u306e\u3067\u30e1\u30e2\u3002<\/p>\n<p>\u2022 <strong>Strand=strand<\/strong>: DNA is currently passing through a single pore.<br \/>\n\u2022 <strong>Adapter=adapter<\/strong>: The pore is sequencing the unligated sequencing adapter only. Reads will initially be classified as adapter until the DNA\/RNA strand starts translocating through the pore and MinKNOW&#x2122; is able to reclassify the read. Please note that when sequencing shorter fragments, MinKNOW&#x2122; might only label it as adapter despite there being read data in the raw signal and that this will still be basecalled.<br \/>\n\u2022 <strong>Single pore=pore<\/strong>: Single pore is present, however no DNA or other sample is currently passing through the pore.<br \/>\n\u2022 <strong>Unavailable=unavailable<\/strong>: Single pore which is currently blocked. Pores can be unblocked during the course of the experiment by the software\/electronics.<br \/>\n\u2022 <strong>Active feedback=unblocking<\/strong>: The channel is being flicked, either as part of a routine flick or to remove a stalled strand.<br \/>\n\u2022<strong>Possible Multiple=multiple<\/strong>: More than one pore is present at that sensor.<br \/>\n\u2022 <strong>Saturated=saturated<\/strong>: This indicates that particular sensor was passing too much current and the channel was switched off by the software in order to not affect neighbouring channels.<br \/>\n\u2022 <strong>Out of Range 1=unknown_negative<\/strong>: Some negative current passing through that particular sensor.<br \/>\n\u2022 <strong>Out of Range 2 =unknown_positive<\/strong>: Some current passing through that particular sensor, but cause of current cannot be classified (hasn&#8217;t been assigned as a pore or as strand data).<br \/>\n\u2022 <strong>Zero=zero<\/strong>: Very little current passing through that particular sensor (viable pore not present).<\/p>\n","protected":false},"excerpt":{"rendered":"<p>PDF\u3067\u51fa\u529b\u3055\u308c\u308b\u6642\u7cfb\u5217\u306epore st<\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"colormag_page_container_layout":"default_layout","colormag_page_sidebar_layout":"default_layout","_locale":"ja","_original_post":"http:\/\/home.hiroshima-u.ac.jp\/~tigawa\/?p=1368","footnotes":""},"categories":[7],"tags":[],"class_list":["post-1368","post","type-post","status-publish","format-standard","hentry","category-protocol","ja"],"_links":{"self":[{"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/posts\/1368","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=1368"}],"version-history":[{"count":1,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/posts\/1368\/revisions"}],"predecessor-version":[{"id":1369,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/posts\/1368\/revisions\/1369"}],"wp:attachment":[{"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=1368"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=1368"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=1368"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}