Repository revision
5:23300b42ca18

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

Create assemblies with Unicycler tool metadata
Miscellaneous
unicycler
toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.4.6.0
0.4.6.0
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.4.7.0
toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.4.6.0 (this tool)
toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.4.4.0
toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.4.1.1
toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.4.1
toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.2.0
unicycler
Requirements (dependencies defined in the <requirements> tag set)
name version type
unicycler 0.4.6 package
Functional tests
name inputs outputs required files
Test-1 graph_clean|min_component_size: 1000
linear_seqs: 0
paired_unpaired|fastq_input_selector: paired
rotation|no_rotate: False
paired_unpaired|fastq_input2: phix_r.fq.gz
rotation|start_gene_id: 90
paired_unpaired|fastq_input1: phix_f.fq.gz
rotation|start_gene_cov: 95
pilon|no_pilon: False
lr_align|scores: 3,-6,-5,-2
spades|depth_filter: 0.25
min_fasta_length: 100
graph_clean|min_dead_end_size: 1000
spades|max_kmer_frac: 0.95
spades|kmer_count: 10
spades|min_kmer_frac: 0.2
pilon|min_polish_size: 1000
spades|no_correct: True
mode: normal
attributes: name
attributes: name
phix_f.fq.gz
phix_r.fq.gz
name
Test-2 graph_clean|min_component_size: 1000
linear_seqs: 0
spades|min_kmer_frac: 0.2
paired_unpaired|fastq_input_selector: paired
rotation|no_rotate: False
paired_unpaired|fastq_input2: phix_r.fq.gz
rotation|start_gene_cov: 95
paired_unpaired|fastq_input1: phix_f.fq.gz
rotation|start_gene_id: 90
pilon|no_pilon: False
long: onp.fa
spades|depth_filter: 0.25
min_fasta_length: 100
graph_clean|min_dead_end_size: 1000
spades|max_kmer_frac: 0.95
spades|kmer_count: 10
mode: normal
pilon|min_polish_size: 1000
spades|no_correct: True
lr_align|scores: 3,-6,-5,-2
attributes: name
attributes: name
phix_f.fq.gz
phix_r.fq.gz
onp.fa
name
Test-3 graph_clean|min_component_size: 1000
linear_seqs: 0
paired_unpaired|fastq_input_selector: paired_collection
rotation|no_rotate: False
rotation|start_gene_id: 90
paired_unpaired|fastq_input1: paired collection
rotation|start_gene_cov: 95
pilon|no_pilon: True
lr_align|scores: 3,-6,-5,-2
spades|depth_filter: 0.25
min_fasta_length: 100
graph_clean|min_dead_end_size: 1000
spades|max_kmer_frac: 0.95
mode: normal
spades|kmer_count: 10
pilon|min_polish_size: 1000
spades|no_correct: True
spades|min_kmer_frac: 0.2
attributes: name
attributes: name
phix_f.fq.gz
phix_r.fq.gz
name
Test-4 paired_unpaired|fastq_input_selector: none
min_anchor_seg_len: 10
long: only_long.fasta
spades|kmers: 21,23
attributes: name
attributes: name
only_long.fasta
name