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T2T assembly supporting tools

Hi all,

Has anyone used t2t assembly with transcriptome data? If yes, single cell RNAseq or bulk? Which aligner(s) did you use?

Thank you!

telomere t2t assembly genome

I think it is uncommon to use RNA-seq data for t2t assemblies as they usually are use for scaffolding rather than to fill gaps in a genome, but that aside, I wouldn't use single cell since it usually 3' biased, you would like to have a good coverage of the entire gene body to increase the chances to scaffold two contigs that span the same gene.

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