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General
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Mutation Calling
Building Phylogeny
Examples
Trisicell
Index
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Index
Symbols
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A
|
B
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C
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D
|
E
|
F
|
G
|
M
|
P
|
R
|
S
|
T
|
W
Symbols
--begin_index <begin_index>
trisicell-booster command line option
--build
trisicell-mcalling command line option
--clean
trisicell-mcalling command line option
--dep_weight <dep_weight>
trisicell-booster command line option
--disable_tqdm
trisicell-booster command line option
--n_iterations <n_iterations>
trisicell-booster command line option
--n_jobs <n_jobs>
trisicell-booster command line option
--n_samples <n_samples>
trisicell-booster command line option
--no_dependencies
trisicell-booster command line option
--no_reconstruction
trisicell-booster command line option
--no_subsampling
trisicell-booster command line option
--sample_on <sample_on>
trisicell-booster command line option
--sample_size <sample_size>
trisicell-booster command line option
--solver <solver>
trisicell-booster command line option
--status
trisicell-mcalling command line option
--subsample_dir <subsample_dir>
trisicell-booster command line option
--test
trisicell-mcalling command line option
--time_limit <time_limit>
trisicell-booster command line option
--version
trisicell command line option
,
[1]
,
[2]
-b
trisicell-mcalling command line option
-c
trisicell-mcalling command line option
-s
trisicell-mcalling command line option
-t
trisicell-mcalling command line option
A
ALPHA
trisicell-booster command line option
B
BETA
trisicell-booster command line option
booster() (in module trisicell.tl)
C
clonal_tree() (in module trisicell.pl)
CONFIG_FILE
trisicell-mcalling command line option
consensus() (in module trisicell.tl)
consensus_combine() (in module trisicell.pp)
CONSENSUS_PATH
trisicell-consensus command line option
D
dendro_tree() (in module trisicell.pl)
E
example() (in module trisicell.datasets)
F
filter_mut_mutant_must_present_in_at_least() (in module trisicell.pp)
filter_mut_reference_must_present_in_at_least() (in module trisicell.pp)
FIRST_TREE
trisicell-consensus command line option
G
GENOTYPE_FILE
trisicell-booster command line option
M
module
trisicell
trisicell.datasets
trisicell.io
trisicell.pl
trisicell.pp
trisicell.tl
trisicell.ul
P
partition_function() (in module trisicell.tl)
R
read() (in module trisicell.io)
remove_cell_by_list() (in module trisicell.pp)
remove_mut_by_list() (in module trisicell.pp)
S
SECOND_TREE
trisicell-consensus command line option
sublines_bwes() (in module trisicell.datasets)
sublines_bwts() (in module trisicell.datasets)
sublines_scrnaseq() (in module trisicell.datasets)
T
to_cfmatrix() (in module trisicell.ul)
to_mtree() (in module trisicell.ul)
to_tree() (in module trisicell.ul)
treated_actla4() (in module trisicell.datasets)
treated_igg_ss2() (in module trisicell.datasets)
treated_igg_sw() (in module trisicell.datasets)
trisicell
module
trisicell command line option
--version
,
[1]
,
[2]
trisicell-booster command line option
--begin_index <begin_index>
--dep_weight <dep_weight>
--disable_tqdm
--n_iterations <n_iterations>
--n_jobs <n_jobs>
--n_samples <n_samples>
--no_dependencies
--no_reconstruction
--no_subsampling
--sample_on <sample_on>
--sample_size <sample_size>
--solver <solver>
--subsample_dir <subsample_dir>
--time_limit <time_limit>
ALPHA
BETA
GENOTYPE_FILE
trisicell-consensus command line option
CONSENSUS_PATH
FIRST_TREE
SECOND_TREE
trisicell-mcalling command line option
--build
--clean
--status
--test
-b
-c
-s
-t
CONFIG_FILE
trisicell.datasets
module
trisicell.io
module
trisicell.pl
module
trisicell.pp
module
trisicell.tl
module
trisicell.ul
module
W
write() (in module trisicell.io)
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