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sc2-rmd
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2021-03-17
00:19:58
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SARS-CoV-2 Rmarkdown报告工具 该存储库提供参数化的rmarkdown模板,包装器脚本和WDL工作流,以针对您的病毒测序实验室针对SARS-CoV-2测序活动向美国各州和当地公共卫生机构生成例行(例如,每周)报告。 当前为Broad Institute配置了默认值。 所需的输入包括: 装配体元数据文件,通常由sarscov2_illumina_full WDL工作流程生成。 tsv映射示例ID到协作者原始ID examples目录中提供了这两个输入文件的示例以及示例输出文件。 还提供了WDL工作流包装器。 输出包括输入数据中表示的每个美国州的两个文件: 带有关键数字,表格和图表的PDF叙事报告。 XLSX电子表格,其中包含每个样本的详细指标。
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