{"id":11435,"date":"2025-08-25T17:11:33","date_gmt":"2025-08-25T08:11:33","guid":{"rendered":"https:\/\/www.ibs.re.kr\/bimag\/?post_type=tribe_events&p=11435"},"modified":"2025-09-01T11:02:44","modified_gmt":"2025-09-01T02:02:44","slug":"scassist-an-ai-based-workflow-assistant-for-single-cell-analysis-aqsa-awan","status":"publish","type":"tribe_events","link":"https:\/\/www.ibs.re.kr\/bimag\/event\/scassist-an-ai-based-workflow-assistant-for-single-cell-analysis-aqsa-awan\/","title":{"rendered":"SCassist: An AI Based Workflow Assistant for Single-Cell Analysis – Aqsa Awan"},"content":{"rendered":"

In this talk, we discuss the paper “SCassist: An AI Based Workflow Assistant for Single-Cell Analysis ” by Vijayaraj<\/span>\u00a0Nagarajan et al., bioarxiv, 2025.\u00a0<\/span><\/span><\/p>\n

Abstract<\/strong><\/p>\n

Single-cell RNA sequencing (scRNA-seq) data analysis often involves complex iterative workflow, requiring significant expertise and time. To navigate this complexity, we have developed SCassist, an R package that leverages the power of the large language models (LLM\u2019s) to guide and enhance scRNA-seq analysis. SCassist integrates LLM\u2019s into key workflow steps, to analyze user data and provide relevant recommendations for filtering, normalization and clustering parameters. It also provides LLM guided insightful interpretations of variable features and principal components, along with cell type annotations and enrichment analysis. SCassist provides intelligent assistance using popular LLM\u2019s like Google\u2019s Gemini, OpenAI\u2019s GPT and Meta\u2019s Llama3, making scRNA-seq analysis accessible to researchers at all levels.<\/p>\n","protected":false},"excerpt":{"rendered":"

In this talk, we discuss the paper “SCassist: An AI Based Workflow Assistant for Single-Cell Analysis ” by Vijayaraj\u00a0Nagarajan et al., bioarxiv, 2025.\u00a0 Abstract Single-cell RNA sequencing (scRNA-seq) data analysis … <\/p>\n

Continue reading “SCassist: An AI Based Workflow Assistant for Single-Cell Analysis – Aqsa Awan”<\/span><\/a><\/p>\n","protected":false},"author":11,"featured_media":0,"template":"","meta":{"_editorskit_title_hidden":false,"_editorskit_reading_time":0,"_editorskit_is_block_options_detached":false,"_editorskit_block_options_position":"{}","_uag_custom_page_level_css":"","_tribe_events_status":"","_tribe_events_status_reason":"","footnotes":""},"tags":[],"tribe_events_cat":[219],"class_list":["post-11435","tribe_events","type-tribe_events","status-publish","hentry","tribe_events_cat-journal-club","cat_journal-club"],"yoast_head":"\nSCassist: An AI Based Workflow Assistant for Single-Cell Analysis - Aqsa Awan - Biomedical Mathematics Group<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/www.ibs.re.kr\/bimag\/event\/scassist-an-ai-based-workflow-assistant-for-single-cell-analysis-aqsa-awan\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"SCassist: An AI Based Workflow Assistant for Single-Cell Analysis - Aqsa Awan - Biomedical Mathematics Group\" \/>\n<meta property=\"og:description\" content=\"In this talk, we discuss the paper “SCassist: An AI Based Workflow Assistant for Single-Cell Analysis ” by Vijayaraj\u00a0Nagarajan et al., bioarxiv, 2025.\u00a0 Abstract Single-cell RNA sequencing (scRNA-seq) data analysis … Continue reading "SCassist: An AI Based Workflow Assistant for Single-Cell Analysis – Aqsa Awan"\" \/>\n<meta property=\"og:url\" content=\"https:\/\/www.ibs.re.kr\/bimag\/event\/scassist-an-ai-based-workflow-assistant-for-single-cell-analysis-aqsa-awan\/\" \/>\n<meta property=\"og:site_name\" content=\"Biomedical Mathematics Group\" \/>\n<meta property=\"article:modified_time\" content=\"2025-09-01T02:02:44+00:00\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:label1\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data1\" content=\"1 minute\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\\\/\\\/schema.org\",\"@graph\":[{\"@type\":\"WebPage\",\"@id\":\"https:\\\/\\\/www.ibs.re.kr\\\/bimag\\\/event\\\/scassist-an-ai-based-workflow-assistant-for-single-cell-analysis-aqsa-awan\\\/\",\"url\":\"https:\\\/\\\/www.ibs.re.kr\\\/bimag\\\/event\\\/scassist-an-ai-based-workflow-assistant-for-single-cell-analysis-aqsa-awan\\\/\",\"name\":\"SCassist: An AI Based Workflow Assistant for Single-Cell Analysis - 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