A pairwise scatter plot of the quality control metrics collected by scPipe for the mouse blood cell dataset.
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posted on 2018-08-10, 17:26 authored by Luyi Tian, Shian Su, Xueyi Dong, Daniela Amann-Zalcenstein, Christine Biben, Azadeh Seidi, Douglas J. Hilton, Shalin H. Naik, Matthew E. RitchieSample-specific metrics include the total read count, the number of genes detected and the proportion of non-ERCC or non-mitocondrial reads. The good quality and outlier samples detected by scPipe’s automatic outlier detection method are indicated in each panel by a different colour.
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scPipe R packageChromium 10 XRNA sequencingquality controlbarcoding strategiesUMI-aware gene-level quantificationopen-source scRNA-seq analysis toolsbarcode demultiplexingsequencing datadata structurevisualizationquality assessmentcount matrixRNA-sequencing dataanalysesHTML reportsummarises data qualityR commands
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