thanks for the friendly tools for single cell transcriptome data. There I wound want to know how to assign reconstructed RNA molecules to transcript isoforms?
According the results of smart-seq3 of pipeline, the zUMIs_out/expression/*dgecounts.rds include the umicount and readcount_internal matrix. In my opinion, the umicount matrix is the results of the 5' UMI reads assignments and the readcount_internal matrix is only the internal reads assignments? or including the 5' UMI reads?
I know there have the pipeline of assign reconstructed RNA molecules to transcript isoforms(https://github.com/sandberg-lab/Smart-seq3), wound you integrate this in zUMIs smart-seq3 pipeline to output the isform matrix? It will help more projects with smart-seq3 data.
Hi someone of zUMIs team,
thanks for the friendly tools for single cell transcriptome data. There I wound want to know how to assign reconstructed RNA molecules to transcript isoforms?
According the results of smart-seq3 of pipeline, the zUMIs_out/expression/*dgecounts.rds include the umicount and readcount_internal matrix. In my opinion, the umicount matrix is the results of the 5' UMI reads assignments and the readcount_internal matrix is only the internal reads assignments? or including the 5' UMI reads?
I know there have the pipeline of assign reconstructed RNA molecules to transcript isoforms(https://github.com/sandberg-lab/Smart-seq3), wound you integrate this in zUMIs smart-seq3 pipeline to output the isform matrix? It will help more projects with smart-seq3 data.
thanks!