Simulating illumina sequences with UMI data

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2.3 years ago

Stefan ▴ 10

Hi so I am quite new to this area of biology, so please excuse (and also correct) any incorrect nomenclature.

I have been simulating Illumina reads using ART, and running them through a genotyping pipeline to test it. However, as far as I can tell ART does not support adding UMI information to the simulation.

Is there any software that can do that?

sequencing genotyping umi simulating illumina • 763 views

ADD COMMENT • link 2.3 years ago by Stefan ▴ 10

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I don't readily recall any software (does not mean it does not exist) that simulates UMI's. Unless you must have a simulated dataset there should be enough datasets available to use.

All 10x datasets have UMI's. You can download many here.

Searching with UMI + RNAseq in sra-explorer (LINK) shows many samples.

ADD REPLY • link 2.3 years ago by GenoMax 141k

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Thank you, that is also very helpful

ADD REPLY • link 2.3 years ago by Stefan ▴ 10

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