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For the paired end reads, is it recommended to use option -p or should i go with default without it? #72

@unique379r

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@unique379r

Hi
I need to have tpm counts for paired end reads mapped with star, should i use option -p (Use only properly paired reads. Default: No. Recommended for paired-end reads.) or by default without it ? whats pros and cons os using it ?

Thanks

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