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clifinder website  

L1 Chimeric Transcripts (LCTs) are transcribed from LINE 1 antisense promoter and include the L1 5’UTR sequence in antisense orientation followed by the adjacent genomic region.

CLIFinder v0.4.1 is a tool, specifically designed to identify potential LCTs from one or several oriented RNA-seq paired-end reads in the human genome.

CLIFinder v0.4.1 is customizable to detect transcripts initiated by different types of repeat elements.

Environment Modules

Run module spider clifinder to find out what environment modules are available for this application.

System Variables

  • HPC_CLIFINDER_DIR - installation directory
  • HPC_CLIFINDER_BIN - executalbe directory
  • HPC_CLIFINDER_DOC - documentation directory