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cancerit / telomerecat

Telomerecat: The telomere computational analysis tool
GNU General Public License v3.0
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Would telomerecat work with single cell DNA sequencing data? #39

Closed rodrigoduarte88 closed 2 years ago

rodrigoduarte88 commented 2 years ago

I am trying to identify a tool for analysing single cell sequencing data, but I am not sure I found one yet.

AndyMenzies commented 2 years ago

There is no specific reason why it shouldn't work. telomerecat just needs a paired end bam file. However, single cell sequencing data is notoriously messy and suffers with a lot of inconsistent coverage due to library capture issues. I've seen some whole genome single cell sequencing look a lot like targeted data, and its not predictable targeted sequencing either, coverage is random for each sample.

So, in theory it should work, but the reliability will vary from sample to sample. And there will be some samples it just won't like.

rodrigoduarte88 commented 2 years ago

Thank you!! Will be giving it a try soon!! When I have some preliminary results I'll get in touch to let others know