MoCA
0.4.1
Site
moca package
MoCA: Tool for MOtif Conservation Analysis
Installation
Usage
Contributing
Credits
History
Page
Index
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B
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C
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E
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G
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I
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M
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P
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Q
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R
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S
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W
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__str__() (moca.helpers.exceptions.MocaException method)
B
Bedfile (class in moca.bedoperations.model)
C
can_run_meme_parallel() (moca.pipeline.job_processor.Pipeline method)
chdir() (in module moca.helpers.job_executor)
ConfigurationParser (class in moca.helpers.configuration_parser)
create_annnotation_plot() (in module moca.plotter.plotter)
create_bar_plot() (in module moca.plotter.plotter)
create_enrichment_plot() (in module moca.plotter.plotter)
create_logo_plot() (in module moca.plotter.plotter)
create_ols_legend_plot() (in module moca.plotter.plotter)
create_plot() (in module moca.plotter.plotter)
create_scatter_plot() (in module moca.plotter.plotter)
create_stemplot() (in module moca.plotter.plotter)
E
extract_fasta() (moca.bedoperations.model.Bedfile method)
G
get_all_genomes() (moca.helpers.configuration_parser.ConfigurationParser method)
get_all_sections() (moca.helpers.configuration_parser.ConfigurationParser method)
get_binary_path() (moca.helpers.configuration_parser.ConfigurationParser method)
get_chromosomes (moca.wigoperations.query.WigReader attribute)
get_fimo_default_params (moca.pipeline.job_processor.Pipeline attribute)
get_genome_data() (moca.helpers.configuration_parser.ConfigurationParser method)
get_meme_default_params (moca.pipeline.job_processor.Pipeline attribute)
get_memechip_default_params (moca.pipeline.job_processor.Pipeline attribute)
get_section() (moca.helpers.configuration_parser.ConfigurationParser method)
get_total_peaks (moca.bedoperations.model.Bedfile attribute)
guess_bedformat() (moca.bedoperations.model.Bedfile method)
I
init_figure() (in module moca.plotter.plotter)
is_executable() (in module moca.helpers.configuration_parser)
M
moca (module)
moca.bedoperations (module)
moca.bedoperations.model (module)
moca.helpers (module)
moca.helpers.configuration_parser (module)
moca.helpers.exceptions (module)
moca.helpers.job_executor (module)
moca.pipeline (module)
moca.pipeline.job_processor (module)
moca.plotter (module)
moca.plotter.plotter (module)
moca.version (module)
moca.webservice (module)
moca.wigoperations (module)
moca.wigoperations.query (module)
MocaException
P
Pipeline (class in moca.pipeline.job_processor)
Q
query() (moca.wigoperations.query.WigReader method)
R
run_centrimo() (moca.pipeline.job_processor.Pipeline method)
run_fasta_shuffler() (moca.pipeline.job_processor.Pipeline method)
run_fimo() (moca.pipeline.job_processor.Pipeline method)
run_job() (in module moca.helpers.job_executor)
run_meme() (moca.pipeline.job_processor.Pipeline method)
run_memechip() (moca.pipeline.job_processor.Pipeline method)
S
safe_makedir() (in module moca.helpers.job_executor)
save_conservation_scores() (moca.pipeline.job_processor.Pipeline static method)
save_figure() (in module moca.plotter.plotter)
setp_lines() (in module moca.plotter.plotter)
setup_matplotlib() (in module moca.plotter.plotter)
slop_bed() (moca.bedoperations.model.Bedfile method)
sort_by() (moca.bedoperations.model.Bedfile method)
split_train_test_bed() (moca.bedoperations.model.Bedfile method)
W
WigReader (class in moca.wigoperations.query)
write_to_scorefile() (moca.bedoperations.model.Bedfile method)