Delila Program: indana

indana program

Documentation for the indana program is below, with links to related programs in the "see also" section.

{   version = 5.32; (* of indana.p 2017 Sep 14}

(* begin module describe.indana *)
      indana: analysis of an index

      indana(ind: in, ana: out, subind: out, indanap: in, output: out)

      ind: an index produced by the index program.  it must not be a
         teaching index.
      ana: a histogram of the similarities of the index along with the
         mean, standard deviation and frequency distribution of the
         the similarities.
      subind: portions of the index selected by the parameters in indanap.
         pairs (or adjacent sets) of lines of the index are printed.  the
         similarities of the original index are maintained.  this means that
         the first similarity of a pair (or set) is not a reflection of the
         similarity to the line above it.  the ones that are 'true'
         are marked with an asterisk [*].
      indanap: parameters to control indana, containing 3 lines:
         1. the lowest similarity to put into subind
         2. the highest similarity to put into subind
         3. if the first character is 'b' then the groups of similar
            sequences will be broken apart by blank lines.

      An index is usually quite large, so it is difficult to look at by hand.
      Indana allows one to select a portion of the index by various criteria.
      The portion is called a "sub-index".  If the original book contained a
      number of highly similar oligo- nucleotides, then the histogram of
      similarities will show a spike of high similarities.

see also
      The program that produces the index 'ind' file is:  index.p

      Thomas Schneider

      none known

(* end module describe.indana *)
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