Repository revision
5:6ae3a402b9af

Repository 'lumpy_sv'
hg clone https://toolshed.g2.bx.psu.edu/repos/artbio/lumpy_sv

lumpy-sv tool metadata
Miscellaneous
lumpy-sv
find structural variants
lumpy
toolshed.g2.bx.psu.edu/repos/artbio/lumpy_sv/lumpy/1.2.2
1.2.2
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/artbio/lumpy_sv/lumpy/1.2.2 (this tool)
toolshed.g2.bx.psu.edu/repos/artbio/lumpy_sv/lumpy/1.2.1
toolshed.g2.bx.psu.edu/repos/artbio/lumpy_sv/lumpy/1.2.0
toolshed.g2.bx.psu.edu/repos/artbio/lumpy_sv/lumpy/1.1.0
toolshed.g2.bx.psu.edu/repos/artbio/lumpy_sv/lumpy/1.0.1
toolshed.g2.bx.psu.edu/repos/artbio/lumpy_sv/lumpy/1.0.0
lumpy
Requirements (dependencies defined in the <requirements> tag set)
name version type
lumpy-sv 0.2.13 package
samtools 1.3.1 package
numpy 1.11.2=py27_0 package
Functional tests
name inputs outputs required files
Test-1 seq_method|additional_params|weight: 1
seq_method|additional_params|back_distance: 10
seq_method|additional_params|mw: 4
seq_method|additional_params|tt: 0
analysis_type|analysis_type_list: two_sample
seq_method|additional_params|min_mapping_threshold: 20
analysis_type|input_file: sample_Del.bam
analysis_type|input_fileB: sample_cle.bam
seq_method|seq_method_list: paired-end
attributes: name
sample_Del.bam
sample_cle.bam
name
Test-2 seq_method|additional_params|weight: 1
seq_method|additional_params|back_distance: 10
seq_method|additional_params|min_mapping_threshold: 20
seq_method|additional_params|tt: 0
analysis_type|analysis_type_list: one_sample
seq_method|additional_params|mw: 4
analysis_type|input_file: sr.input.bam
seq_method|seq_method_list: single-read
attributes: name
sr.input.bam
name
Test-3 seq_method|additional_params|weight: 1
seq_method|additional_params|evidence: True
seq_method|additional_params|back_distance: 10
seq_method|additional_params|min_mapping_threshold: 20
seq_method|additional_params|tt: 0
analysis_type|analysis_type_list: one_sample
seq_method|additional_params|mw: 4
analysis_type|input_file: sr.input.bam
seq_method|additional_params|probability_curve: True
seq_method|seq_method_list: single-read
attributes: name
sr.input.bam
name
Test-4 seq_method|additional_params|weight: 1
seq_method|additional_params|back_distance: 10
seq_method|additional_params|mw: 4
seq_method|additional_params|tt: 0
analysis_type|analysis_type_list: two_sample
seq_method|additional_params|min_mapping_threshold: 20
analysis_type|input_file: sr.input.bam
analysis_type|input_fileB: sr.input.bam
seq_method|seq_method_list: single-read
attributes: name
sr.input.bam
name