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  • HESmith
    replied
    SnpSift is the partner tool to SnpEff for filtering variants.

    Leave a comment:


  • kjmclean
    started a topic filtering variants to just those in CDS

    filtering variants to just those in CDS

    I am trying to filter a vcf file of variants down to just those that reside within exons. I'm working with the malaria parasite Plasmodium falciparum.

    Is there a software you'd recommend for this purpose?

    Most of the ones I've found seem to be designed almost exclusively for use with human data. I tried working with SNPEff, but I can only get it to annotate everything. I can't seem to get it to filter out variants I'm not interested in.

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  • seqadmin
    Essential Discoveries and Tools in Epitranscriptomics
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    The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...
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