Repository revision
1:f0107b9f2dc3

Repository 'checkm_lineage_wf'
hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/checkm_lineage_wf

CheckM lineage_wf tool metadata
Miscellaneous
Assessing the completeness and contamination of genome bins using lineage-specific marker sets
checkm_lineage_wf
toolshed.g2.bx.psu.edu/repos/iuc/checkm_lineage_wf/checkm_lineage_wf/1.2.0+galaxy0
1.2.0+galaxy0
checkm
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/iuc/checkm_lineage_wf/checkm_lineage_wf/1.2.3+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/checkm_lineage_wf/checkm_lineage_wf/1.2.0+galaxy0 (this tool)
checkm_lineage_wf
Requirements (dependencies defined in the <requirements> tag set)
name version type
checkm-genome 1.2.0 package
Functional tests
name inputs outputs required files
Test-1 bins|bins_ind: 637000110.fna
bins|select: individual
tree_analyze|reduced_tree: True
tree_analyze|ali: False
tree_analyze|nt: False
tree_analyze|genes: False
lineage_set|unique: 10
lineage_set|multi: 10
lineage_set|force_domain: False
lineage_set|no_refinement: False
qa|individual_markers: False
qa|skip_adj_correction: False
qa|skip_pseudogene_correction: False
qa|aai_strain: 0.9
qa|ignore_thresholds: False
qa|e_value: 1e-10
qa|length: 0.7
extra_outputs:
name: value
637000110.fna
value
Test-2 bins|bins_coll: list collection
bins|select: collection
tree_analyze|reduced_tree: True
tree_analyze|ali: True
tree_analyze|nt: False
tree_analyze|genes: False
lineage_set|unique: 10
lineage_set|multi: 10
lineage_set|force_domain: False
lineage_set|no_refinement: False
qa|individual_markers: False
qa|skip_adj_correction: False
qa|skip_pseudogene_correction: False
qa|aai_strain: 0.9
qa|ignore_thresholds: False
qa|e_value: 1e-10
qa|length: 0.7
extra_outputs: ['phylo_hmm_info', 'bin_stats_tree', 'hmmer_tree', 'concatenated_tre', 'concatenated_fasta', 'marker_file', 'hmmer_analyze', 'bin_stats_analyze', 'bin_stats_ext', 'checkm_hmm_info', 'marker_gene_stats']
name: value
name: value
name: value
name: value
name: value
name: value
name: value
name: value
name: value
name: value
637000110.fna
value