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single-cell-genetics / vireo

Demultiplexing pooled scRNA-seq data with or without genotype reference
https://vireoSNP.readthedocs.io
Apache License 2.0
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Question: Bulk RNA-seq from nanopore? #40

Open alexandruioanvoda opened 2 years ago

alexandruioanvoda commented 2 years ago

Hi! Impressive work!

I was wondering whether your package would support demultiplexing bulk RNA-seq? And nanopore-based (i.e. not Illumina short) reads? Is support for other genomes (e.g. other mammalians) easily configurable?

huangyh09 commented 2 years ago

Thanks. We do have an extension on demultiplexing bulk RNA-seq for multiple donors and will have a preprint in a few weeks along with tutorials. At the moment, we can share a pre-released version with you if you send us an email (yuanhua@hku.hk).

For nanopore-based data, I'm not sure. I anticipate a positive result but we haven't tested on it.

Yuanhua