ORA-20001: APP-FND-01564: ORACLE error - 1422 in get_seq_info Cause: get_seq_info failed due to ORA-01422: exact fetch returns more than the requested number of rows. The SQL statement being executed at the time of the error was: SEQ.DOC_SEQUENCE_ID, SEQ.TYPE, SEQ.NAME...and was...
python3 SCSA.py -d whole.db -s seurat -i seurat_GSE72056.csv -k All -E -g Human -p 0.01 -f 1.5 To annotate a human scRNA-seq sets generated byScanpy, use the following code ### scanpy_pbmc_3k.csv was genearted by following command from anndata object: ### result = adata...
1#但是尽管读取是一起读取并创建了counts对象,但是我们后续创建Seurat对象的时候是需要分别读取的 2 scRNA <- CreateSeuratObject(counts[["Gene Expression"]]) 3 adt <- CreateAssayObject(counts[["Antibody Capture"]]) 4 all.equal(colnames(counts[["Gene Expression"]]), colnames(counts[["Antibody Captu...
第二步:根据分组信息和表达矩阵进行normalization 这里构建了一个对象 An object of class “EList” v<-voom(exprSet,design,normalize="quantile")## 下面的代码如果你不感兴趣不需要运行,免得误导你## 就是看看normalization前面的数据分布差异#png("RAWvsNORM.png")exprSet_new=v$Epar(cex=0.7)n.sample=nco...
Automatic Parallel Support Accelerate code by automatically running computation in parallel using Parallel Computing Toolbox™. See Also dnds|dndsml|fastaread|multialign|nwalign|pdist|phytree|seqlinkage Topics phytree object Introduced before R2006a...
Vector of structures with the fieldsHeaderandName Cell array of character vectors or string vector The number of elements must equal the number of samples used to generate the pairwise distances inDistances. Description PhyloTree= seqneighjoin(Distances)computesPhyloTree, a phylogenetic tree object, fr...
(3) Add "slot" parameter in "DimPlot" function, external dimension reduction results can be added in RISC object, e.g. add phate results (phate0) to RISC object obj0@DimReduction$cell.phate = phate0; DimPlot(obj0, slot = "cell.phate", colFactor = 'Group', size = 2, label = TRU...
3 TheDESeqDataSetobject, sample information and the design formula 3.1 Starting fromSummarizedExperiment 3.2 Starting from count matrices 4 Exploratory analysis and visualization 4.1 Pre-filtering the dataset 4.2 The variance stabilizing transformation and the rlog ...
3#adt_assay <- CreateAssayObject(counts = adt) 4 #counts[["ADT"]] <- adt_assay 这里我们可以很清楚的看到,我们这里有两个文件,分别是表达数据以及ADT数据,也就是说这两个数据结合起来其实就是我们的CITE-seq技术 1#但是尽管读取是一起读取并创建了counts对象,但是我们后续创建Seurat对象的时候是需要分别...