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Tuesday, September 17, 2013

Detect mutations from RNA-seq data

Usually we detect mutations by DNA-sequencing or whole exome sequencing, GATK is the commonly used pipeline for this purpose.

But RNA-seq data can also be used to call mutations in addition to detect the differentially expressed genes. However, the pipelines like GATK is not suitable for this kind of data.

A software


was developed by Wei Li in Harvard Dana-Farber cancer Insitute for this purpose
See the post here


1 comment:

  1. Another software: SNPiR from stanford