/rcdk/man/props.Rd

http://github.com/rajarshi/cdkr · Unknown · 41 lines · 40 code · 1 blank · 0 comment · 0 complexity · 356490c725c85d2480ec9126e4b44b5a MD5 · raw file

  1. \name{get.tpsa}
  2. \alias{get.tpsa}
  3. \alias{get.alogp}
  4. \alias{get.xlogp}
  5. \alias{get.volume}
  6. \title{
  7. Commonly Used Molecular Descriptors
  8. }
  9. \description{
  10. These methods will return the value for the corresponding
  11. descriptors. While they can always be evaluated using
  12. \code{\link{eval.desc}}, they are common enough that separate
  13. functions are provided.
  14. }
  15. \usage{
  16. get.tpsa(molecule)
  17. get.alogp(molecule)
  18. get.xlogp(molecule)
  19. get.volume(molecule)
  20. }
  21. \arguments{
  22. \item{molecule}{A \code{jObjRef} representing an IAtomContainer object}
  23. }
  24. \details{
  25. It's important to note that ALogP and XLogP assumes that the molecule
  26. has explicit hydrogens. If the molecule is read from an SD file,
  27. explicit H's are usually present. On the other hand, if the molecule
  28. is obtained from a SMILES, explicit hydrogens must be added.
  29. The molecular volume is calculated using a group contribution method
  30. rather than the an analytical method. This allows to avoid the use of
  31. 3D structures.
  32. }
  33. \value{
  34. Single numeric value representing TPSA, ALogP, XLogP or molecular volume.
  35. }
  36. \keyword{programming}
  37. \seealso{
  38. \code{\link{eval.desc}}
  39. }
  40. \author{Rajarshi Guha (\email{rajarshi.guha@gmail.com})}