基于多种条件的生物信息学过滤/选择答案

【问题标题】：Bioinformatics filtering/selecting based on multiple conditions基于多种条件的生物信息学过滤/选择
【发布时间】：2020-10-13 22:21:55
【问题描述】：

您好，我正在尝试选择具有某些 KEGG 通路的不同 OTU，我想知道为什么以下方法不起作用或您的建议是什么。我试过 dplyr 并使用 =、!=、<> 没有成功。有什么建议吗？

Group1<-sqldf("SELECT DISTINCT OTU FROM 'retro.flux.avg.OTU'
WHERE Pathway IN ('ko00362','ko00625','ko00361','ko00623','ko00622','ko00633','ko00642','ko00626','ko00624')")
          AND Pathway IN ('ko02030')")

Group2<-sqldf("SELECT DISTINCT OTU FROM 'retro.flux.avg.OTU'
WHERE Pathway IN ('ko00362','ko00625','ko00361','ko00623','ko00622','ko00633','ko00642','ko00626','ko00624')")
          AND Pathway NOT IN ('ko02030')")

Group3<-sqldf("SELECT DISTINCT OTU FROM 'retro.flux.avg.OTU'
WHERE Pathway NOT IN ('ko00362','ko00625','ko00361','ko00623','ko00622','ko00633','ko00642','ko00626','ko00624')")
          AND Pathway IN ('ko02030')")


Group4<-sqldf("SELECT DISTINCT OTU FROM 'retro.flux.avg.OTU'
WHERE Pathway NOT IN ('ko02030','ko00362','ko00625','ko00361','ko00623','ko00622','ko00633','ko00642','ko00626','ko00624')")

【问题讨论】：

标签： sql r bioinformatics sqldf

【解决方案1】：

这是我的想法

代替

Group1<-sqldf("SELECT DISTINCT OTU FROM 'retro.flux.avg.OTU'
WHERE Pathway IN ('ko00362','ko00625','ko00361','ko00623','ko00622','ko00633','ko00642','ko00626','ko00624')") 
AND Pathway IN ('ko02030')")

只需输入以下内容

删除了额外的 ")，我注意到查询中还有 1 个错误并修复了它

Group1<-sqldf("SELECT DISTINCT OTU FROM 'retro.flux.avg.OTU'
WHERE Pathway IN ('ko00362','ko00625','ko00361','ko00623','ko00622','ko00633','ko00642','ko00626','ko00624')")

【讨论】：