pyM2SA
refactoring
Contents:
About
API documentation
pyM2SA
Docs
»
Index
Edit on GitHub
Index
A
|
B
|
C
|
D
|
E
|
F
|
G
|
H
|
I
|
M
|
O
|
P
|
R
|
S
|
T
|
U
|
W
A
add_gap_to_sequence_at_index() (pym2sa.core.solution.MSASolution method)
B
BAliBASE (class in pym2sa.problem.BAliBASE)
C
create_initial_population() (pym2sa.algorithm.multiobjective.dnsgaii.dNSGAII method)
create_new_solution() (in module pym2sa.algorithm.multiobjective.dnsgaii)
create_solution() (pym2sa.problem.BAliBASE.BAliBASE method)
(pym2sa.problem.MSA.MSA method)
cross_parents() (pym2sa.operator.crossover.SPXMSA method)
D
DATA_FILES (pym2sa.problem.BAliBASE.BAliBASE attribute)
decode_alignment_as_list_of_pairs() (pym2sa.core.solution.MSASolution method)
decode_alignment_as_list_of_sequences() (pym2sa.core.solution.MSASolution method)
decode_sequence_at_index() (pym2sa.core.solution.MSASolution method)
DelayedEvaluator (class in pym2sa.component.evaluator)
dNSGAII (class in pym2sa.algorithm.multiobjective.dnsgaii)
(module)
do_crossover() (pym2sa.operator.crossover.HMSA method)
(pym2sa.operator.crossover.SPXMSA method)
do_mutation() (pym2sa.operator.mutation.MultipleMSAMutation method)
(pym2sa.operator.mutation.OneRandomGapInsertion method)
(pym2sa.operator.mutation.ShiftClosedGapGroups method)
(pym2sa.operator.mutation.ShiftGapGroup method)
(pym2sa.operator.mutation.TwoRandomAdjacentGapGroup method)
E
evaluate() (pym2sa.component.evaluator.DelayedEvaluator method)
(pym2sa.component.evaluator.MapEvaluator method)
(pym2sa.component.evaluator.MultithreadedEvaluator method)
(pym2sa.component.evaluator.SubmitEvaluator method)
(pym2sa.component.evaluator.ThreadPoolEvaluator method)
(pym2sa.core.problem.MSAProblem method)
(pym2sa.problem.MSA.MSA method)
execute() (pym2sa.operator.crossover.HMSA method)
(pym2sa.operator.crossover.SPXMSA method)
(pym2sa.operator.mutation.MultipleMSAMutation method)
(pym2sa.operator.mutation.OneRandomGapInsertion method)
(pym2sa.operator.mutation.ShiftClosedGapGroups method)
(pym2sa.operator.mutation.ShiftGapGroup method)
(pym2sa.operator.mutation.TwoRandomAdjacentGapGroup method)
F
fill_sequences_with_gaps_to_reach_the_max_sequence_length() (pym2sa.operator.crossover.SPXMSA method)
find_cutting_points_in_first_parent() (pym2sa.operator.crossover.SPXMSA method)
find_length_of_the_largest_sequence() (pym2sa.operator.crossover.SPXMSA method)
find_original_positions_in_original_sequences() (pym2sa.operator.crossover.SPXMSA method)
G
get_char_position_in_original_sequence() (pym2sa.core.solution.MSASolution method)
get_gap_columns_from_alignment() (pym2sa.core.solution.MSASolution method)
get_length_of_alignment() (pym2sa.core.solution.MSASolution method)
get_length_of_gaps() (pym2sa.core.solution.MSASolution method)
get_length_of_sequence() (pym2sa.core.solution.MSASolution method)
get_name() (pym2sa.algorithm.multiobjective.dnsgaii.dNSGAII method)
(pym2sa.core.problem.MSAProblem method)
(pym2sa.operator.crossover.HMSA method)
(pym2sa.operator.crossover.SPXMSA method)
(pym2sa.operator.mutation.MultipleMSAMutation method)
(pym2sa.operator.mutation.OneRandomGapInsertion method)
(pym2sa.operator.mutation.ShiftClosedGapGroups method)
(pym2sa.operator.mutation.ShiftGapGroup method)
(pym2sa.operator.mutation.TwoRandomAdjacentGapGroup method)
(pym2sa.problem.BAliBASE.BAliBASE method)
(pym2sa.problem.MSA.MSA method)
get_next_char_position_after_gap() (pym2sa.core.solution.MSASolution method)
get_number_of_gaps_groups_of_sequence() (pym2sa.core.solution.MSASolution method)
get_number_of_gaps_of_sequence_at_index() (pym2sa.core.solution.MSASolution method)
get_number_of_parents() (pym2sa.operator.crossover.HMSA method)
(pym2sa.operator.crossover.SPXMSA method)
get_original_char_position_in_aligned_sequence() (pym2sa.core.solution.MSASolution method)
get_result() (pym2sa.algorithm.multiobjective.dnsgaii.dNSGAII method)
get_total_number_of_gaps() (pym2sa.core.solution.MSASolution method)
H
HMSA (class in pym2sa.operator.crossover)
I
is_gap_char_at_sequence() (pym2sa.core.solution.MSASolution method)
is_gap_column() (pym2sa.core.solution.MSASolution method)
is_valid_msa() (pym2sa.core.solution.MSASolution method)
M
MapEvaluator (class in pym2sa.component.evaluator)
merge_gaps_groups() (pym2sa.core.solution.MSASolution method)
MSA (class in pym2sa.problem.MSA)
MSAPlot (class in pym2sa.util.graphic)
MSAProblem (class in pym2sa.core.problem)
MSASolution (class in pym2sa.core.solution)
MultipleMSAMutation (class in pym2sa.operator.mutation)
MultithreadedEvaluator (class in pym2sa.component.evaluator)
O
OneRandomGapInsertion (class in pym2sa.operator.mutation)
P
ProcessPoolEvaluator (class in pym2sa.component.evaluator)
pym2sa.algorithm.multiobjective.dnsgaii (module)
pym2sa.component.evaluator (module)
pym2sa.component.observer (module)
pym2sa.core.problem (module)
pym2sa.core.solution (module)
pym2sa.operator.crossover (module)
pym2sa.operator.mutation (module)
pym2sa.problem.BAliBASE (module)
pym2sa.problem.MSA (module)
pym2sa.util.graphic (module)
R
R (in module pym2sa.algorithm.multiobjective.dnsgaii)
remove_full_of_gaps_columns() (pym2sa.core.solution.MSASolution method)
remove_gap_column() (pym2sa.core.solution.MSASolution method)
remove_gap_from_sequence() (pym2sa.core.solution.MSASolution method)
remove_gap_group_from_sequence_at_column() (pym2sa.core.solution.MSASolution method)
reproduction() (in module pym2sa.algorithm.multiobjective.dnsgaii)
run() (pym2sa.algorithm.multiobjective.dnsgaii.dNSGAII method)
S
ShiftClosedGapGroups (class in pym2sa.operator.mutation)
ShiftGapGroup (class in pym2sa.operator.mutation)
split_gap_column() (pym2sa.core.solution.MSASolution method)
SPXMSA (class in pym2sa.operator.crossover)
SubmitEvaluator (class in pym2sa.component.evaluator)
T
ThreadPoolEvaluator (class in pym2sa.component.evaluator)
to_html() (pym2sa.util.graphic.MSAPlot method)
TwoRandomAdjacentGapGroup (class in pym2sa.operator.mutation)
U
update() (pym2sa.component.observer.WriteSequencesToFileObserver method)
update_progress() (pym2sa.algorithm.multiobjective.dnsgaii.dNSGAII method)
W
WriteSequencesToFileObserver (class in pym2sa.component.observer)
Read the Docs
v: refactoring
Versions
latest
refactoring
Downloads
pdf
htmlzip
epub
On Read the Docs
Project Home
Builds
Free document hosting provided by
Read the Docs
.