Index

B

bamtofastq_bin (bioluigi.config.BioluigiConfig attribute) bcftools_bin (bioluigi.config.BioluigiConfig attribute) bioluigi module bioluigi (in module bioluigi.config) bioluigi.config module

bioluigi.tasks module bioluigi.tasks.utils module BioluigiConfig (class in bioluigi.config)

C

cellranger_bin (bioluigi.config.BioluigiConfig attribute) complete() (bioluigi.tasks.utils.DynamicWrapperTask method)

CreateTaskOutputDirectoriesBeforeRunMixin (class in bioluigi.tasks.utils) cutadapt_bin (bioluigi.config.BioluigiConfig attribute)

D

DynamicTaskWithOutputMixin (class in bioluigi.tasks.utils)

DynamicWrapperTask (class in bioluigi.tasks.utils)

F

fastqc_bin (bioluigi.config.BioluigiConfig attribute)

fastqdump_bin (bioluigi.config.BioluigiConfig attribute)

G

get_task_family() (bioluigi.config.BioluigiConfig class method)

M

metadata (bioluigi.tasks.utils.TaskWithMetadataMixin attribute) module bioluigi bioluigi.config bioluigi.tasks bioluigi.tasks.utils

multiqc_bin (bioluigi.config.BioluigiConfig attribute)

O

on_failure() (bioluigi.tasks.utils.RemoveTaskOutputOnFailureMixin method)

output() (bioluigi.tasks.utils.DynamicTaskWithOutputMixin method) (bioluigi.tasks.utils.TaskWithOutputMixin method)

P

prefetch_bin (bioluigi.config.BioluigiConfig attribute)

R

RemoveTaskOutputOnFailureMixin (class in bioluigi.tasks.utils)

rsem_dir (bioluigi.config.BioluigiConfig attribute) run() (bioluigi.tasks.utils.CreateTaskOutputDirectoriesBeforeRunMixin method)

S

samtools_bin (bioluigi.config.BioluigiConfig attribute) scheduler (bioluigi.config.BioluigiConfig attribute)

scheduler_extra_args (bioluigi.config.BioluigiConfig attribute) scheduler_partition (bioluigi.config.BioluigiConfig attribute) star_bin (bioluigi.config.BioluigiConfig attribute)

T

TaskWithMetadataMixin (class in bioluigi.tasks.utils)

TaskWithOutputMixin (class in bioluigi.tasks.utils)

U

unpack_singleton (bioluigi.tasks.utils.DynamicTaskWithOutputMixin attribute)

V

vep_bin (bioluigi.config.BioluigiConfig attribute)

vep_dir (bioluigi.config.BioluigiConfig attribute)