Index

A

absolute_symlink() (in module oncopipe)

as_one_line() (in module oncopipe)

C

check_for_none_strings() (in module oncopipe) check_for_update_strings() (in module oncopipe) check_reference() (in module oncopipe)

cleanup_module() (in module oncopipe) combine_lists() (in module oncopipe) compare_links() (in module oncopipe) create_formatter() (in module oncopipe)

D

discard_samples() (in module oncopipe)

E

enable_set_functions() (in module oncopipe)

F

filter_samples() (in module oncopipe)

G

generate_pairs() (in module oncopipe) generate_runs() (in module oncopipe) generate_runs_for_patient() (in module oncopipe)

generate_runs_for_patient_wrapper() (in module oncopipe) get_from_dict() (in module oncopipe) get_reference() (in module oncopipe) group_samples() (in module oncopipe)

K

keep_samples() (in module oncopipe)

L

list_files() (in module oncopipe)

load_samples() (in module oncopipe) locate_bam() (in module oncopipe)

O

oncopipe (module)

P

prepare_symlink() (in module oncopipe)

R

relative_symlink() (in module oncopipe)

retry() (in module oncopipe)

S

set_input() (in module oncopipe) set_samples() (in module oncopipe) set_value() (in module oncopipe)

setup_module() (in module oncopipe) setup_subdirs() (in module oncopipe) switch_on_column() (in module oncopipe) switch_on_wildcard() (in module oncopipe)

W

walk_through_dict() (in module oncopipe)