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MGI-tech-bioinformatics / DNBelab_C_Series_HT_scRNA-analysis-software

An open source and flexible pipeline to analysis high-throughput DNBelab C Series single-cell RNA datasets
MIT License
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filter matrix 和 raw matrix有什么区别？ #88

Open ultraypy opened 1 month ago

ultraypy commented 1 month ago

我可不可以自己对raw matrix进行预处理和过滤

lishuangshuang0616 commented 1 month ago

Raw is the transcript expression matrix of all detected cell barcodes, and filter is the matrix identified as real cells after the background is filtered out by cell calling. It is recommended to use filter, you can also use raw to filter manually.

ultraypy commented 1 month ago

Can I use the Seurat workflow for filtering?

lishuangshuang0616 commented 1 month ago

yes , use subset to filter ,subset gene,umi,mt etc

pbmc <- [subset](https://rdrr.io/r/base/subset.html)(pbmc, subset = nFeature_RNA > $num1 & nFeature_RNA < $num2 & percent.mt < $num3)

https://satijalab.org/seurat/articles/pbmc3k_tutorial