Repository revision
22:f6ced08779c4

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

MarkDuplicates tool metadata
Miscellaneous
examine aligned records in BAM datasets to locate duplicate molecules
picard_MarkDuplicates
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.1
2.18.2.1
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.2
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.1 (this tool)
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.0
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.7.1.2
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.7.1.1
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.7.1.0
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/1.136.0
toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/1.126.0
picard_MarkDuplicates
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 duplicate_scoring_strategy: SUM_OF_BASE_QUALITIES
remove_duplicates: True
read_name_regex: .*[a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).*
comments_0|comment: test-run
optical_duplicate_pixel_distance: 100
assume_sorted: True
validation_stringency: LENIENT
inputFile: picard_MarkDuplicates.bam
attributes: name
picard_MarkDuplicates.bam
name
Test-2 duplicate_scoring_strategy: SUM_OF_BASE_QUALITIES
remove_duplicates: False
read_name_regex:
comments_0|comment: test-run
optical_duplicate_pixel_distance: 100
assume_sorted: True
validation_stringency: LENIENT
inputFile: picard_MarkDuplicates.bam
attributes: name
picard_MarkDuplicates.bam
name