PileLine & PileLineGUI

PileLine is a flexible command-line toolkit for efficient handling, filtering, and comparison of genomic position (GP) files produced by next-generation sequencing experiments (i.e. pileup, BED,GFF, or VCF files). PileLine is designed to be memory efficient by performing on-disk operations over sorted GP files directly.

PileLine GUI is a front-end of the PileLine toolkit, plus a genome browser. With this intuitive graphical desktop application you can run the following tasks:

  1. Processing commands of GP files, like seek, join, annotate and filtering.
  2. Perform 2-samples and n-samples point somatic mutation calling (via the
  3. PileLine 2smc and nsmc commands).
  4. Browse GP files in an interactive local genome browser.

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