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mquinodo / AutoMap

Tool to find regions of homozygosity (ROHs) from sequencing data.
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Can it be used on RNA-seq data? #8

Closed kvn95ss closed 3 years ago

kvn95ss commented 3 years ago

Hello,

Was curious to know if the tool can be used on RNA-seq data, or if some parameters have to be modified to accommodate RNA data.

mquinodo commented 3 years ago

Hello,

I did not try it on RNA-Seq data. The results will depend on how many genes are expressed in your experiement. However without intronic variants close to exon, the performance will be forcibly lower for fro RNA-Seq data, especially for small ROHs.