# #——回声= FALSE -------------------------------------------------------------- 库(knitr) opts_chunk美元集(缓存= FALSE,错误= FALSE) # #设置,包括= FALSE ----------------------------------------------------- knitr: opts_chunk设置(echo = TRUE) # #——美元安装 ------------------------------------------------------------------ 如果(!requireNamespace(“BiocManager”,静静地= TRUE) install.packages(“BiocManager”)BiocManager::安装(“SeqGate ") ## ---- load_SeqGate ------------------------------------------------------------- 库(SeqGate) # #——load_dataTest ------------------------------------------------------------ 数据(data_MiTF_1000genes)头(data_MiTF_1000genes) # #——define_cond -------------------------------------------------------------- 气孔导度< - c(“A”、“A”、“B”,“B”,“A”、“B”)# #——create_se ---------------------------------------------------------------- rowData < - DataFrame (row.names = rownames (data_MiTF_1000genes)) colData < - DataFrame(条件=电导率)counts_strub < SummarizedExperiment(化验=列表(数量= data_MiTF_1000genes),构成了rowData, rowData =colData = colData) # #——apply_basic -------------------------------------------------------------- counts_strub < applySeqGate (counts_strub,“数量”,“条件 ") ## ---- get_kept_features -------------------------------------------------------- 构成了rowData (counts_strub keptGenes < -试验(counts_strub()美元onFilter = = TRUE))头(keptGenes)暗(keptGenes) # #——阈值 ---------------------------------------------------------------- 元数据(counts_strub)阈值# #美元——get_filtered ------------------------------------------------------------- 构成了rowData (counts_strub filteredOut < -试验(counts_strub()美元onFilter = = FALSE,])头(filteredOut) # #——apply_custom ------------------------------------------------------------- counts_strub < - applySeqGate (counts_strub,“数量”,“条件”,prop0 = 1/3,百分位= 0.8,propUpThresh = 0.5) # #——sessionInfo -------------------------------------------------------------- sessionInfo ()