/working/auteur.extended/NAMESPACE

http://github.com/eastman/auteur · #! · 65 lines · 63 code · 2 blank · 0 comment · 0 complexity · 66c89aa9508b469080023af984ce0873 MD5 · raw file 

    

  1. useDynLib(auteur.extended)
    2. 

  2. 

  3. export(
    4. 

  4. add.transparency,
    5. 

  5. adjustrate,
    6. 

  6. adjustvalue,
    7. 

  7. assess.lnR,
    8. 

  8. assignroot,
    9. 

  9. bm.lik.fn,
    10. 

  10. branchcol.plot,
    11. 

  11. calibrate.jumpsize,
    12. 

  12. choose.one,
    13. 

  13. cleanup.files,
    14. 

  14. collect.nodes,
    15. 

  15. compare.rates,
    16. 

  16. determine.accepted.proposal,
    17. 

  17. edgelabels.rj,
    18. 

  18. find.relatives,
    19. 

  19. fit.continuous,
    20. 

  20. generate.error.message,
    21. 

  21. generate.log,
    22. 

  22. generate.starting.point,
    23. 

  23. get.ancestor.of.node,
    24. 

  24. get.ancestors.of.node,
    25. 

  25. get.desc.of.node,
    26. 

  26. get.descendants.of.node,
    27. 

  27. get.epochs,
    28. 

  28. get.times,
    29. 

  29. hdr,
    30. 

  30. infer.y,
    31. 

  31. intercalate.samples,
    32. 

  32. is.root,
    33. 

  33. nearest.pair,
    34. 

  34. parlogger,
    35. 

  35. pathlengths,
    36. 

  36. pool.rjmcmcsamples,
    37. 

  37. prepare.data,
    38. 

  38. prepare.ouchdata,
    39. 

  39. prunelastsplit,
    40. 

  40. ptpois,
    41. 

  41. oumat,
    42. 

  42. ouweights,
    43. 

  43. ouch.ou.lik.fn,
    44. 

  44. ou.lik.fn,
    45. 

  45. randomization.test,
    46. 

  46. rjmcmc.bm,
    47. 

  47. rjmcmc.ou,
    48. 

  48. rtpois,
    49. 

  49. shifts.plot,
    50. 

  50. splitormerge,
    51. 

  51. splitrate,
    52. 

  52. splitvalue,
    53. 

  53. summarize.run,
    54. 

  54. table.print,
    55. 

  55. trace.plot,
    56. 

  56. tracer,
    57. 

  57. tune.rate,
    58. 

  58. tune.value,
    59. 

  59. ultrametricize,
    60. 

  60. updatevcv,
    61. 

  61. vmat,
    62. 

  62. withinrange	
    63. 

  63. )
    64. 

  64. 

  65. #importFrom( utils, capture.output )
    66.