Genetic variation calling (SNPs) from bulk RNA-seq dataset
Dear All,
Is there anything should be careful for the workflow developed for Genetic variation calling (SNPs) from bulk RNA-seq dataset. Is there mature established workflow for SNP identification from RNA-seq data?
Thanks.
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Istvan Albert
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Shicheng Guo
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Shicheng Guo
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I believe that DNA based variant callers suffice, for a review see the following paper:
RNA-Seq Data for Reliable SNP Detection and Genotype Calling: Interest for Coding Variant Characterization and Cis-Regulation Analysis by Allele-Specific Expression in Livestock Species, Frontiers of Genetics, 2021
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