How to generate a spreedsheet showing total reads, mapped reads, total UMIs ,gene numbers etc per cell?

CGATOxford / UMI-tools

Tools for handling Unique Molecular Identifiers in NGS data sets

MIT License

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How to generate a spreedsheet showing total reads, mapped reads, total UMIs ,gene numbers etc per cell? #547

Closed Meletian closed 8 months ago

Meletian commented 2 years ago

thanks for providing such a useful tool.

But will it be possible to generate a spreedsheet like I metioned so I can compare the each cell's library and filter some cells out ?

TomSmithCGAT commented 8 months ago

This issue clearly got missed. umi_tools count currently doesn't tally the number of total reads per cell, so this isn't possible. We'd happily consider a PR for this though.