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shapemap website  

SHAPE-MaP is a concise, direct, and highly accurate technology for reading out the results of an RNA or DNA structure probing experiment by massively parallel sequencing. Chemical modifications are recorded as noncomplementary nucleotides (sequence changes) during cDNA synthesis and are thus not significantly affected by whatever downstream manipulations are required to generate libraries for massively parallel sequencing. Among many uses, SHAPE-MaP makes possible highly accurate RNA secondary structure modeling on genome and transcriptome wide scales.

Required Modules


  • gcc/5.2.0
  • shapemap

System Variables

  • HPC_SHAPEMAP_DIR - installation directory
  • HPC_SHAPEMAP_BIN - binary directory
  • HPC_SHAPEMAP_CFG - config example directory