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epi2me-labs / pychopper

cDNA read preprocessing
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Change umi pattern #57

Closed passelma42 closed 4 months ago

passelma42 commented 6 months ago

Hi,

Is it possible to change the umi pattern if -U flag is issued. We are using this pattern TTTVVVVTTVVVVTTVVVVTTVVVVTTT in our UMItagged amplicons. If so we could use pychopper to get the correct tagged reads in our data.

nrhorner commented 6 months ago

Hi @passelma42

TTTVVVVTTVVVVTTVVVVTTVVVVTTT is already the UMI pattern that is searched for with Pychopper. So you should be able to just use -U with your data.

Neil

nrhorner commented 4 months ago

closing as no response