{"id":1505,"date":"2008-03-08T11:43:40","date_gmt":"2008-03-08T09:43:40","guid":{"rendered":"http:\/\/www.wjst.de\/blog\/2008\/03\/08\/how-to-impute-marker-genotypes\/"},"modified":"2008-03-08T11:43:42","modified_gmt":"2008-03-08T09:43:42","slug":"how-to-impute-marker-genotypes","status":"publish","type":"post","link":"https:\/\/www.wjst.de\/blog\/sciencesurf\/2008\/03\/how-to-impute-marker-genotypes\/","title":{"rendered":"How to impute marker genotypes"},"content":{"rendered":"<p>I am currently playing with <a href=\"http:\/\/www.sph.umich.edu\/csg\/abecasis\/MaCH\/\">MACH<\/a> and <a href=\"http:\/\/www.bios.unc.edu\/~lin\/software\/SNPMStat\/\">SNPMStat<\/a> to impute marker based on public datasets. I do not have any opinion about the usefulness of this approach &#8211; largely due to the fact that ~10% of my allele coding is different to the public hapmap data.<!--more--><br \/>\nBTW the hapmap people have been very helpful in explaining to me, how imputing can be done by a web service. For that purpose l<a href=\"http:\/\/www.hapmap.org\/cgi-perl\/gbrowse\/hapmap21_B35\/\">locate your region of interest<\/a> then select in the dropdown &#8220;Download Impute Data&#8221; from the &#8216;Reports &#038; Analysis&#8217; section. The configuration page lets you upload a .ped and .dat files, yea, yea.<br \/>\n<a href=\"https:\/\/www.wjst.de\/blog\/wp-content\/uploads\/2008\/03\/imputedata.png\" title='' data-rel=\"key-image-0\" data-rl_title=\"\" data-rl_caption=\"\"><img src='https:\/\/www.wjst.de\/blog\/wp-content\/uploads\/2008\/03\/imputedata.png' alt='imputedata.png' \/><\/a><\/p>\n\n<p>&nbsp;<\/p>\n<div class=\"bottom-note\">\n  <span class=\"mod1\">CC-BY-NC Science Surf , accessed 25.05.2026<\/span>\n <\/div>","protected":false},"excerpt":{"rendered":"<p>I am currently playing with MACH and SNPMStat to impute marker based on public datasets. I do not have any opinion about the usefulness of this approach &#8211; largely due to the fact that ~10% of my allele coding is different to the public hapmap data. &nbsp; CC-BY-NC Science Surf , accessed 25.05.2026<\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[2,9],"tags":[817,1733,1734,1735,1732],"class_list":["post-1505","post","type-post","status-publish","format-standard","hentry","category-genetics-biology","category-computer-software","tag-alleles","tag-hapmap-data","tag-mach1","tag-marker","tag-public-datasets"],"_links":{"self":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts\/1505","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/comments?post=1505"}],"version-history":[{"count":0,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts\/1505\/revisions"}],"wp:attachment":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/media?parent=1505"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/categories?post=1505"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/tags?post=1505"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}