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TrinityCTAT / ctat-mutations

Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19
https://github.com/TrinityCTAT/ctat-mutations
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Do I need spliced fastq? #120

Open HyojeenLee opened 1 year ago

HyojeenLee commented 1 year ago

Hello,

I am now following the tutorial for single cell, RNA seq, somatic mutation calling. I am wondering if the input fastq file had to be spliced (spicing introns) in advance of the workflow?

Otherwise, does CTAT automatically remove intron part for analysis?

Thank you.