package bistro-bio

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package bistro-bio
Legend:
Library
Module
Module type
Parameter
Class
Class type
type matrix = [
  1. | `DAYHOFF
  2. | `DCMUT
  3. | `JTT
  4. | `MTREV
  5. | `WAG
  6. | `RTREV
  7. | `CPREV
  8. | `VT
  9. | `BLOSUM62
  10. | `MTMAM
  11. | `LG
  12. | `MTART
  13. | `MTZOA
  14. | `PMB
  15. | `HIVB
  16. | `HIVW
  17. | `JTTDCMUT
  18. | `FLU
  19. | `STMTREV
  20. | `DUMMY
  21. | `DUMMY2
  22. | `AUTO
  23. | `LG4M
  24. | `LG4X
  25. | `PROT_FILE
  26. | `GTR_UNLINKED
  27. | `GTR
]
type bin_model = [
  1. | `BINCAT
  2. | `BINCATI
  3. | `ASC_BINCAT
  4. | `BINGAMMA
  5. | `ASC_BINGAMMA
  6. | `BINGAMMAI
]
type nucleotide_model = [
  1. | `GTRCAT
  2. | `GTRCATI
  3. | `ASC_GTRCAT
  4. | `GTRGAMMA
  5. | `ASC_GTRGAMMA
  6. | `GTRGAMMAI
]
type multi_state_model = [
  1. | `MULTICAT
  2. | `MULTICATI
  3. | `ASC_MULTICAT
  4. | `MULTIGAMMA
  5. | `ASC_MULTIGAMMA
  6. | `MULTIGAMMAI
]
type amino_acid_model = [
  1. | `PROTCAT of matrix
  2. | `ASC_PROTCAT of matrix
  3. | `PROTGAMMA of matrix
]
val hpc_fasta : ?b:int -> ?c:int -> ?d:bool -> ?_D_:bool -> ?f: [< `A | `B | `C | `D | `E | `F | `G | `H | `I | `J | `N | `R | `S | `T | `V | `W | `a | `b | `c | `d | `e | `g | `h | `i | `j | `k | `m | `n | `o | `p | `q | `r | `s | `t | `u | `v | `w | `x | `y ] -> ?_F_:bool -> ?k:bool -> ?p:int -> ?t:Formats.newick Bistro.file -> ?_T_:int -> ?no_bgfs:bool -> model -> Formats.fasta Bistro.file -> [ `raxmlHPC ] Bistro.directory
val hpc_phylip : ?b:int -> ?c:int -> ?d:bool -> ?_D_:bool -> ?f: [< `A | `B | `C | `D | `E | `F | `G | `H | `I | `J | `N | `R | `S | `T | `V | `W | `a | `b | `c | `d | `e | `g | `h | `i | `j | `k | `m | `n | `o | `p | `q | `r | `s | `t | `u | `v | `w | `x | `y ] -> ?_F_:bool -> ?k:bool -> ?p:int -> ?t:Formats.newick Bistro.file -> ?_T_:int -> ?no_bgfs:bool -> model -> Formats.phylip Bistro.file -> [ `raxmlHPC ] Bistro.directory
val result : [ `raxmlHPC ] Bistro.directory -> Formats.newick Bistro.file
val best_tree : [ `raxmlHPC ] Bistro.directory -> Formats.newick Bistro.file
val distances : [ `raxmlHPC ] Bistro.directory -> Bistro.text Bistro.file