outrigger.tests.io.test_bam module

outrigger.tests.io.test_bam.bamfile(tasic2016_bam)

outrigger.tests.io.test_bam.empty(request)

outrigger.tests.io.test_bam.multi(multi_csv)

outrigger.tests.io.test_bam.multi_csv(suffix_template, tasic2016_intermediate_bam)

outrigger.tests.io.test_bam.multiple_bams_reads_table_csvs(tasic2016_intermediate_bam, ignore_multimapping)

csvs for bamfiles (multiple)

outrigger.tests.io.test_bam.read_intermediate_junctions(csv)

outrigger.tests.io.test_bam.single_bam_combined_uniquely_multi_csv(tasic2016_intermediate_bam, bamfile, ignore_multimapping, empty)

outrigger.tests.io.test_bam.single_bam_final_junction_reads_table_csv(bamfile, tasic2016_intermediate_bam, ignore_multimapping)

csv for bamfile (singular)

outrigger.tests.io.test_bam.suffix_template(bamfile)

outrigger.tests.io.test_bam.test__choose_strand_and_sum(uniquely, uniquely_summed_csv)

outrigger.tests.io.test_bam.test__combine_uniquely_multi(uniquely, multi, ignore_multimapping, empty, single_bam_combined_uniquely_multi_csv)

outrigger.tests.io.test_bam.test__get_junction_reads(bamfile, uniquely, multi)

outrigger.tests.io.test_bam.test__report_read_positions(bamfile)

outrigger.tests.io.test_bam.test_bam_to_junction_reads_table(bamfile, single_bam_final_junction_reads_table_csv, ignore_multimapping)

outrigger.tests.io.test_bam.test_read_multiple_bams(bam_filenames, multiple_bams_reads_table_csvs, ignore_multimapping)

outrigger.tests.io.test_bam.uniquely(uniquely_csv)

outrigger.tests.io.test_bam.uniquely_csv(suffix_template, tasic2016_intermediate_bam)

outrigger.tests.io.test_bam.uniquely_summed_csv(bamfile, tasic2016_intermediate_bam)