Repository revision
29:1aac2a13842a

Repository 'picard'
hg clone https://toolshed.g2.bx.psu.edu/repos/devteam/picard

MarkDuplicatesWithMateCigar tool metadata
Miscellaneous
examine aligned records in BAM datasets to locate duplicate molecules
picard_MarkDuplicatesWithMateCigar
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicatesWithMateCigar/2.18.2.2
2.18.2.2
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicatesWithMateCigar/2.18.2.2 (this tool)
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicatesWithMateCigar/1.126.0
picard_MarkDuplicatesWithMateCigar
Requirements (dependencies defined in the <requirements> tag set)
name version type
picard 2.18.2 package
Functional tests
name inputs outputs required files
Test-1 inputFile: picard_MarkDuplicatesWithMateCigar.bam
comment: test-run
minimum_distance: -1
skip_pairs_with_no_mate_cigar: True
remove_duplicates: False
assume_sorted: True
duplicate_scoring_strategy: TOTAL_MAPPED_REFERENCE_LENGTH
read_name_regex: [a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).*.
optical_duplicate_pixel_distance: 100
validation_stringency: LENIENT
name: value
picard_MarkDuplicatesWithMateCigar.bam
value