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Update the alternative splicing module to provide an alternative analysis workflow to StringTie/Ballgown #30

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kcotto opened this issue Mar 18, 2019 · 1 comment
Open

Update the alternative splicing module to provide an alternative analysis workflow to StringTie/Ballgown #30

kcotto opened this issue Mar 18, 2019 · 1 comment

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@kcotto
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kcotto commented Mar 18, 2019

  • Introduction to RegTools functionality. After HISAT2 alignment, QoRTs (written in Scala) performs QC but also processes RNA-seq data to produce count files needed for splicing analysis by DEXSeq and JunctionSeq.
@malachig
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malachig commented Mar 7, 2021

In addition to DEXSeq and JunctionSeq. Some other tools that would be good to consider:

  • Suppa2
  • Regtools
  • LeafCutter

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@malachig @kcotto