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To cite 'sidier' in publications use:

Muñoz-Pajares A (2013). “SIDIER: substitution and indel distances to infer evolutionary relationships.” Methods in Ecology and Evolution, 4, 1195-1200. doi:10.1111/2041-210X.12118.

Corresponding BibTeX entry: 

  @Article{,
    title = {SIDIER: substitution and indel distances to infer
      evolutionary relationships},
    author = {A.J. Muñoz-Pajares},
    journal = {Methods in Ecology and Evolution},
    volume = {4},
    pages = {1195-1200},
    year = {2013},
    doi = {10.1111/2041-210X.12118},
  }

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.