{"id":1925,"date":"2023-09-27T13:53:10","date_gmt":"2023-09-27T13:53:10","guid":{"rendered":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-phyton-materials\/course-content\/"},"modified":"2026-03-10T10:24:34","modified_gmt":"2026-03-10T10:24:34","slug":"course-content","status":"publish","type":"page","link":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-materials\/course-content\/","title":{"rendered":"Course Content"},"content":{"rendered":"\n

These materials were part of the live \u2018Single-Cell RNA-seq Analysis using Python\u2019 course which took place in February 2026. Please refer to the course page and programme<\/a> to check details about this live event and the original programme.<\/p>\n\n\n\n

The content table below outlines the different sessions that were included in the course, as well as the format of the materials (slides\/videos\/practicals) and each session\u2019s trainer. Either proceed through the materials using the arrows at the end of each page or pick your topic of interest from the table below to skip straight to it.<\/p>\n\n\n\n

All the data and presentations from this course can be found in the course FTP<\/a>.<\/p>\n\n\n\n

\"\" Presentation slides \u2013  View or download the slides<\/p>\n\n\n\n

\"\" Recorded lectures \u2013 Watch the lecture videos <\/p>\n\n\n\n

\"\" Practicals \u2013 View or download the slides, exercises, datasets, analysis scripts and results<\/p>\n\n\n\n

Format<\/strong><\/td>Subject<\/strong><\/td>Trainer<\/strong><\/td><\/tr>
<\/td>Planning the experiment<\/a><\/strong><\/td><\/td><\/tr>
\"\"<\/td>Keynote: Single cell, Single nucleus and Spatial Transcriptomics of PSC
<\/a><\/td>		Tallulah Andrews<\/a><\/td><\/tr>
\"\"<\/td>Experimental design<\/a><\/td>Tallulah Andrews<\/a><\/td><\/tr>
\"\"\"\"<\/td>Wet-lab overview<\/a><\/td>Marisa Loach, Kayleigh Smith, Wendi Bacon<\/a> <\/td><\/tr>
\"\"\"\"<\/td>Dry-lab overview<\/a><\/td><\/a>Marisa Loach, Kayleigh Smith, Wendi Bacon<\/a><\/td><\/tr>
<\/td>Processing data<\/a><\/strong><\/td><\/td><\/tr>
\"\"\"\"<\/td>Raw reads to expression matrix<\/a><\/td>Jiawei Wang and Jinzheng Ren<\/a><\/td><\/tr>
\"\"\"\"<\/td>QC, pre-processing and normalisation<\/a><\/td>Iris Diana Yu, Yuyao Song, Hugo Tavares<\/a><\/td><\/tr>
\"\"\"\"<\/td>Single cell Expression Atlas and single cell data submission<\/a><\/td>Liora Vilmovsky <\/a><\/td><\/tr>
<\/td>Analysing data<\/a><\/strong><\/td><\/td><\/tr>
\"\"<\/td>Designing your analysis<\/a><\/td>Tallulah Andrews<\/a><\/td><\/tr>
\"\"\"\"<\/td>Dimensionality reduction, clustering and annotation<\/a><\/td>Jiawei Wang, Jinzheng Ren, Anna Vathrakokili Pournara<\/a><\/td><\/tr>
\"\"\"\"<\/td>Batch correction and data integration<\/a><\/td>Jiawei Wang, Jinzheng Ren, Yuyao Song<\/a><\/td><\/tr>
\"\"\"\"<\/td>Spatial transcriptomics<\/a><\/td>Helder Nakaya, Nadav Yayon<\/a><\/td><\/tr>
\"\"\"\"<\/td>Abundance and differential expression<\/a><\/td>Andrian Yang<\/a><\/td><\/tr>
\"\"<\/td>Multiomics<\/a><\/td>Vinicius Maracaja-Coutinho<\/a><\/td><\/tr>
\"\"<\/td>Trajectory analysis<\/a><\/td>Jonathan Pe\u00f1a \u00c1vila<\/a><\/td><\/tr><\/tbody><\/table><\/figure>\n\n\n\n

<\/p>\n","protected":false},"excerpt":{"rendered":"

These materials were part of the live \u2018Single-Cell RNA-seq Analysis using Python\u2019 course which took place in February 2026. Please refer to the course page and programme to check details about this live event and the original programme. The content table below outlines the different sessions that were included in the course, as well as the format…<\/p>\n","protected":false},"author":28,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-1925","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-materials\/wp-json\/wp\/v2\/pages\/1925","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-materials\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-materials\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-materials\/wp-json\/wp\/v2\/users\/28"}],"replies":[{"embeddable":true,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-materials\/wp-json\/wp\/v2\/comments?post=1925"}],"version-history":[{"count":26,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-materials\/wp-json\/wp\/v2\/pages\/1925\/revisions"}],"predecessor-version":[{"id":2397,"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-materials\/wp-json\/wp\/v2\/pages\/1925\/revisions\/2397"}],"wp:attachment":[{"href":"https:\/\/www.ebi.ac.uk\/training\/materials\/single-cell-rna-seq-analysis-using-python-materials\/wp-json\/wp\/v2\/media?parent=1925"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}