Index
A
|
C
|
D
|
E
|
F
|
G
|
H
|
I
|
M
|
N
|
P
|
Q
|
R
|
S
|
T
|
U
|
V
|
W
|
Y
A
add_subscribers() (checkQC.parsers.parser.Parser method)
ALLOW_MISSING_ERROR_RATE (checkQC.handlers.error_rate_handler.ErrorRateHandler attribute)
always_warn_rule() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler method)
App (class in checkQC.app)
as_dict() (checkQC.handlers.qc_handler.QCHandlerReport method)
C
check_complement_in_dual_index() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler static method)
check_complement_index() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler static method)
check_if_index_in_other_lane() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler static method)
check_qc() (checkQC.handlers.cluster_pf_handler.ClusterPFHandler method)
(checkQC.handlers.error_rate_handler.ErrorRateHandler method)
(checkQC.handlers.q30_handler.Q30Handler method)
(checkQC.handlers.qc_handler.QCHandler method)
(checkQC.handlers.reads_per_sample_handler.ReadsPerSampleHandler method)
(checkQC.handlers.undetermined_percentage_handler.UndeterminedPercentageHandler method)
(checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler method)
check_reverse_complement_in_dual_index() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler static method)
check_reverse_complement_index() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler static method)
check_reversed_in_dual_index() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler static method)
check_reversed_index() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler static method)
check_swapped_dual_index() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler static method)
checkQC (module)
,
[1]
checkQC.app (module)
checkQC.config (module)
checkQC.exceptions (module)
checkQC.handlers (module)
checkQC.handlers.cluster_pf_handler (module)
checkQC.handlers.error_rate_handler (module)
checkQC.handlers.q30_handler (module)
checkQC.handlers.qc_handler (module)
checkQC.handlers.qc_handler_factory (module)
checkQC.handlers.reads_per_sample_handler (module)
checkQC.handlers.undetermined_percentage_handler (module)
checkQC.handlers.unidentified_index_handler (module)
checkQC.parsers (module)
checkQC.parsers.demux_summary_parser (module)
checkQC.parsers.interop_parser (module)
checkQC.parsers.parser (module)
checkQC.parsers.samplesheet_parser (module)
checkQC.parsers.stats_json_parser (module)
checkQC.qc_engine (module)
checkQC.run_type_recognizer (module)
checkQC.run_type_summarizer (module)
checkQC.runfolder_reader (module)
CheckQCException
ClusterPFHandler (class in checkQC.handlers.cluster_pf_handler)
collect() (checkQC.handlers.cluster_pf_handler.ClusterPFHandler method)
(checkQC.handlers.error_rate_handler.ErrorRateHandler method)
(checkQC.handlers.q30_handler.Q30Handler method)
(checkQC.handlers.qc_handler.Subscriber method)
(checkQC.handlers.reads_per_sample_handler.ReadsPerSampleHandler method)
(checkQC.handlers.undetermined_percentage_handler.UndeterminedPercentageHandler method)
(checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler method)
Config (class in checkQC.config)
ConfigEntryMissing
ConfigFactory (class in checkQC.config)
ConfigurationError
configure_and_run() (checkQC.app.App method)
create_subclass_instance() (checkQC.handlers.qc_handler_factory.QCHandlerFactory static method)
custom_configuration_validation() (checkQC.handlers.error_rate_handler.ErrorRateHandler method)
(checkQC.handlers.qc_handler.QCHandler method)
D
DemuxSummaryNotFound
DemuxSummaryParser (class in checkQC.parsers.demux_summary_parser)
E
ERROR (checkQC.handlers.qc_handler.QCHandler attribute)
error() (checkQC.handlers.qc_handler.QCHandler method)
ErrorRateHandler (class in checkQC.handlers.error_rate_handler)
evaluate_index_rules() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler method)
exit_status() (checkQC.handlers.qc_handler.QCHandler method)
F
find_run_parameters_xml() (checkQC.runfolder_reader.RunfolderReader static method)
from_config_path() (checkQC.config.ConfigFactory static method)
G
get() (checkQC.config.Config method)
get_complementary_sequence() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler static method)
get_handler_configs() (checkQC.config.Config method)
get_logging_config_dict() (checkQC.config.ConfigFactory static method)
get_nbr_of_lanes() (checkQC.runfolder_reader.RunfolderReader static method)
get_non_index_reads() (checkQC.parsers.interop_parser.InteropParser static method)
H
HiSeq2500 (class in checkQC.run_type_recognizer)
HiSeqX (class in checkQC.run_type_recognizer)
I
IlluminaInstrument (class in checkQC.run_type_recognizer)
instrument_and_reagent_version() (checkQC.run_type_recognizer.RunTypeRecognizer method)
instrument_type() (checkQC.run_type_recognizer.RunTypeRecognizer method)
InstrumentTypeUnknown
InteropParser (class in checkQC.parsers.interop_parser)
is_significantly_represented() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler method)
ISeq (class in checkQC.run_type_recognizer)
M
MiSeq (class in checkQC.run_type_recognizer)
N
name() (checkQC.run_type_recognizer.HiSeq2500 static method)
(checkQC.run_type_recognizer.HiSeqX static method)
(checkQC.run_type_recognizer.ISeq static method)
(checkQC.run_type_recognizer.IlluminaInstrument static method)
(checkQC.run_type_recognizer.MiSeq static method)
(checkQC.run_type_recognizer.NovaSeq static method)
(checkQC.run_type_recognizer.NovaSeqXPlus static method)
NovaSeq (class in checkQC.run_type_recognizer)
NovaSeqXPlus (class in checkQC.run_type_recognizer)
number_of_reads_per_lane() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler method)
P
Parser (class in checkQC.parsers.parser)
parser() (checkQC.handlers.cluster_pf_handler.ClusterPFHandler method)
(checkQC.handlers.error_rate_handler.ErrorRateHandler method)
(checkQC.handlers.q30_handler.Q30Handler method)
(checkQC.handlers.qc_handler.QCHandler method)
(checkQC.handlers.reads_per_sample_handler.ReadsPerSampleHandler method)
(checkQC.handlers.undetermined_percentage_handler.UndeterminedPercentageHandler method)
(checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler method)
Q
Q30Handler (class in checkQC.handlers.q30_handler)
QCEngine (class in checkQC.qc_engine)
QCErrorFatal (class in checkQC.handlers.qc_handler)
QCErrorWarning (class in checkQC.handlers.qc_handler)
QCHandler (class in checkQC.handlers.qc_handler)
QCHandlerFactory (class in checkQC.handlers.qc_handler_factory)
QCHandlerNotFound
QCHandlerReport (class in checkQC.handlers.qc_handler)
R
read_length() (checkQC.run_type_recognizer.RunTypeRecognizer method)
read_run_info_xml() (checkQC.runfolder_reader.RunfolderReader static method)
read_run_parameters_xml() (checkQC.runfolder_reader.RunfolderReader static method)
ReadsPerSampleHandler (class in checkQC.handlers.reads_per_sample_handler)
reagent_version() (checkQC.run_type_recognizer.HiSeq2500 static method)
(checkQC.run_type_recognizer.HiSeqX static method)
(checkQC.run_type_recognizer.ISeq static method)
(checkQC.run_type_recognizer.IlluminaInstrument static method)
(checkQC.run_type_recognizer.MiSeq static method)
(checkQC.run_type_recognizer.NovaSeq static method)
(checkQC.run_type_recognizer.NovaSeqXPlus static method)
ReagentVersionUnknown
report() (checkQC.handlers.qc_handler.QCHandler method)
run() (checkQC.app.App method)
(checkQC.parsers.demux_summary_parser.DemuxSummaryParser method)
(checkQC.parsers.interop_parser.InteropParser method)
(checkQC.parsers.parser.Parser method)
(checkQC.parsers.samplesheet_parser.SamplesheetParser method)
(checkQC.parsers.stats_json_parser.StatsJsonParser method)
(checkQC.qc_engine.QCEngine method)
RunfolderNotFoundError
RunfolderReader (class in checkQC.runfolder_reader)
RunInfoXMLNotFound
RunModeUnknown
RunParametersNotFound
RunTypeRecognizer (class in checkQC.run_type_recognizer)
RunTypeSummarizer (class in checkQC.run_type_summarizer)
S
SamplesheetNotFound
SamplesheetParser (class in checkQC.parsers.samplesheet_parser)
send() (checkQC.handlers.qc_handler.Subscriber method)
should_be_evaluated() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler method)
StatsJsonNotFound
StatsJsonParser (class in checkQC.parsers.stats_json_parser)
subscribe() (checkQC.handlers.qc_handler.Subscriber method)
Subscriber (class in checkQC.handlers.qc_handler)
summarize() (checkQC.run_type_summarizer.RunTypeSummarizer static method)
T
type() (checkQC.handlers.qc_handler.QCErrorFatal method)
(checkQC.handlers.qc_handler.QCErrorWarning method)
(checkQC.handlers.qc_handler.QCHandlerReport method)
U
UndeterminedPercentageHandler (class in checkQC.handlers.undetermined_percentage_handler)
UnidentifiedIndexHandler (class in checkQC.handlers.unidentified_index_handler)
UNKNOWN (checkQC.handlers.qc_handler.QCHandler attribute)
V
validate_configuration() (checkQC.handlers.qc_handler.QCHandler method)
(checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler method)
W
WARNING (checkQC.handlers.qc_handler.QCHandler attribute)
warning() (checkQC.handlers.qc_handler.QCHandler method)
WHITE_LIST_QC_KEY (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler attribute)
Y
yield_qc_warning_with_message() (checkQC.handlers.unidentified_index_handler.UnidentifiedIndexHandler static method)
Related Topics
Documentation overview
Related Topics
Documentation overview