I would like to try zUMIs on my data. Before running zUMIs, my cDNA Read1 file should be first processed with cutadapt to remove an adapter (the adapter may appear at distinct positions depending on the cDNA length). So after cutadapt processing, the cDNA reads will have varied lengths. My Read2 barcode file has a fixed length of 150bp so that won't be a problem.
Do you have any ideas if zUMIs can process this type of data? In yaml file, how can I define "base_definition" for cDNA?
Hello!
I would like to try zUMIs on my data. Before running zUMIs, my cDNA Read1 file should be first processed with cutadapt to remove an adapter (the adapter may appear at distinct positions depending on the cDNA length). So after cutadapt processing, the cDNA reads will have varied lengths. My Read2 barcode file has a fixed length of 150bp so that won't be a problem. Do you have any ideas if zUMIs can process this type of data? In yaml file, how can I define "base_definition" for cDNA?
Thank you in advance!