{"id":285,"date":"2022-08-04T15:23:55","date_gmt":"2022-08-04T15:23:55","guid":{"rendered":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-r-handbook-2022\/programme\/day-2\/raw-reads-to-expression-matrix\/"},"modified":"2025-02-19T09:26:34","modified_gmt":"2025-02-19T09:26:34","slug":"raw-reads-to-expression-matrix","status":"publish","type":"page","link":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-handbook-2025\/programme-2\/day-2\/raw-reads-to-expression-matrix\/","title":{"rendered":"Raw reads to expression matrix"},"content":{"rendered":"\n<p><strong>Tuesday 18 February 2025<\/strong><\/p>\n\n\n\n<p><strong>Trainers:<\/strong> Jiawei Wang and Jinzheng Ren<\/p>\n\n\n\n<p><strong>Overview:<\/strong> This session will focus on how to perform the initial alignment of the raw reads to the genome, to get an Expression Matrix (EM) in the end.<\/p>\n\n\n\n<h2 class=\"wp-block-heading\">Talk and demo<\/h2>\n\n\n\n<ul class=\"wp-block-list\">\n<li><a href=\"https:\/\/drive.google.com\/file\/d\/1iraTy3bWI7UYkNM0gKGpBQyvKffvldOZ\/view?usp=drive_link\">Presentation slides<\/a><\/li>\n\n\n\n<li><a href=\"https:\/\/embl-ebi.cloud.panopto.eu\/Panopto\/Pages\/Viewer.aspx?id=cb517377-09ab-486b-9961-b28800d517b1\" target=\"_blank\" rel=\"noreferrer noopener\">Recorded<\/a><a href=\"https:\/\/embl-ebi.cloud.panopto.eu\/Panopto\/Pages\/Viewer.aspx?id=cb517377-09ab-486b-9961-b28800d517b1\"> session<\/a><\/li>\n\n\n\n<li><a href=\"https:\/\/drive.google.com\/file\/d\/1xmu45DF8W8qBuCOmzNgeZof8Ea6ue06h\/view?usp=drive_link\">Cellranger setup<\/a><\/li>\n\n\n\n<li><a href=\"https:\/\/drive.google.com\/file\/d\/1DvGl7PISlMYlMoIgy0ho4F-cX56pXa_f\/view?usp=drive_link\">Cellranger demonstration<\/a><\/li>\n<\/ul>\n","protected":false},"excerpt":{"rendered":"<p>Tuesday 18 February 2025 Trainers: Jiawei Wang and Jinzheng Ren Overview: This session will focus on how to perform the initial alignment of the raw reads to the genome, to get an Expression Matrix (EM) in the end. Talk and demo<\/p>\n","protected":false},"author":6,"featured_media":0,"parent":13,"menu_order":2,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-285","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-handbook-2025\/wp-json\/wp\/v2\/pages\/285","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-handbook-2025\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-handbook-2025\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-handbook-2025\/wp-json\/wp\/v2\/users\/6"}],"replies":[{"embeddable":true,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-handbook-2025\/wp-json\/wp\/v2\/comments?post=285"}],"version-history":[{"count":36,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-handbook-2025\/wp-json\/wp\/v2\/pages\/285\/revisions"}],"predecessor-version":[{"id":3357,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-handbook-2025\/wp-json\/wp\/v2\/pages\/285\/revisions\/3357"}],"up":[{"embeddable":true,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-handbook-2025\/wp-json\/wp\/v2\/pages\/13"}],"wp:attachment":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-handbook-2025\/wp-json\/wp\/v2\/media?parent=285"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}