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所在平台: Udemy |
课程主页: https://www.udemy.com/course/snakemake/
课程评论：没有评论
课程名称：使用 Snakemake 的生命科学生物信息学工作流程 课程概述：本课程专注于 Snakemake，这是一种现代工作流程语言，广泛应用于学术界和工业界，用于构建可重复、易读、便携、可互操作和高效的生物信息学管道。课程紧密跟随官方 Snakemake 教程中描述的基本生物信息学工作流程，采取逐步深入的方式，详细探讨 Snakemake 语言的各个特性。 课程内容包括： - 安装 - Snakefile - 规则 - 指令：输入、输出、shell、脚本 - 目标文件 - 创建有向无环图 本课程不包括： - 性能基准 - Conda 指令 - 集群计算机的 Snakemake 配置 - 临时文件 - 参数 - 资源 通过本课程结束后，您将能够构建一个基础的生物信息学管道。这些知识将对您的日常工作产生积极影响，并为您的 Snakemake 高级课程做好准备。课程主要面向生物信息学家，但也适合希望构建管道的其他领域人士，亦可作为生物信息学领域的入门课程。在课程中，我将使用“读取”、“比对”、“BAM”文件、“VCF”文件和变异调用等概念，然而我不会花费太多时间解释这些概念，而是主要集中在 Snakemake 语言上。
Course on snakemake. snakemake is a modern workflow language that is widely used in academic and industrial circles to build reproducible, legible, portable, interoperable and efficient pipelines in bioinformatics and beyond. The course closely follows the basic bioinformatics workflow described in the official snakemake tutorial but takes a step-by-step approach and delves deeply into each feature of the snakemake language. It covers:- installation- Snakefile- rules- directives: input, output, shell, script- target files- creation of a directed acyclic graphThis course does not cover:- benchmarking- conda directive- snakemake profiles for cluster computers- temporary files- parameters- resourcesAt the end of this course, you will be able to build a basic bioinformatics pipeline. This knowledge will be sufficient to make a positive difference in your day-to-day life as a bioinformatician. It will also prepare you for my advanced course on snakemake.The course is primarily intended for bioinformaticians but it can also be useful for people from other fields who want to build pipelines.The course can also be used as an introduction to the field of bioinformatics. In it, I use the concepts of "reads", "alignment", "BAM" files, "VCF" files, variant calls. However, note that I do not spend much time explaining those concepts and focus primarily on the snakemake language.
