| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/qiime_pick_otus/qiime_pick_otus/1.9.1.0 (this tool) |
| qiime_pick_otus |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| qiime | 1.9.1 | package |
| sortmerna | 2.1b | package |
| cd-hit | 4.6.6 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
method|suppress_uclust_stable_sort: False method|suppress_presort_by_abundance_uclust: False non_chimeras_retention: union method|enable_rev_strand_match: False method|otu_picking_method: uclust method|max_accepts: 1 input_seqs_filepath: pick_otus/seqs.fna method|max_rejects: 8 method|denovo_otu_id_prefix: denovo method|optimal_uclust: False method|word_length: 8 method|exact_uclust: False method|similarity: 0.97 method|suppress_prefilter_exact_match: False trie_prefilter: False method|stepwords: 8 method|user_sort: False |
attributes: name attributes: name |
pick_otus/seqs.fna name |
| Test-2 |
non_chimeras_retention: union method|sortmerna_max_pos: 10000 method|otu_picking_method: sortmerna method|references|source_selector: history method|sortmerna_e_value: 1 trie_prefilter: False method|references|refseqs_fp: pick_otus/refseqs.fasta method|sortmerna_tabular|test: yes method|similarity: 0.97 method|sortmerna_tabular|sortmerna_best_N_alignments: 1 method|suppress_prefilter_exact_match: False method|sortmerna_coverage: 0.97 input_seqs_filepath: pick_otus/seqs.fna |
attributes: name attributes: name attributes: name attributes: name |
pick_otus/seqs.fna pick_otus/refseqs.fasta name |
| Test-3 |
method|trie_reverse_seqs: False input_seqs_filepath: pick_otus/seqs.fna non_chimeras_retention: union trie_prefilter: False method|otu_picking_method: trie |
attributes: name attributes: name |
pick_otus/seqs.fna name |
| Test-4 |
method|max_rejects: 8 non_chimeras_retention: union method|enable_rev_strand_match: False method|otu_picking_method: uclust_ref method|references|source_selector: history method|max_accepts: 1 input_seqs_filepath: pick_otus/seqs.fna method|suppress_presort_by_abundance_uclust: False method|references|refseqs_fp: pick_otus/refseqs.fasta method|word_length: 8 method|similarity: 0.97 method|suppress_new_clusters: False trie_prefilter: False method|stepwords: 8 |
attributes: name attributes: name attributes: name |
pick_otus/seqs.fna pick_otus/refseqs.fasta name |
| Test-5 |
non_chimeras_retention: union method|otu_picking_method: swarm method|swarm_resolution: 1 input_seqs_filepath: pick_otus/seqs.fna method|denovo_otu_id_prefix: denovo trie_prefilter: False |
attributes: name attributes: name |
pick_otus/seqs.fna name |
| Test-6 |
non_chimeras_retention: union method|otu_picking_method: prefix_suffix method|suffix_length: 50 input_seqs_filepath: pick_otus/seqs.fna method|prefix_length: 50 trie_prefilter: False |
attributes: name attributes: name |
pick_otus/seqs.fna name |
| Test-7 |
method|suppress_uclust_stable_sort: False method|suppress_presort_by_abundance_uclust: False non_chimeras_retention: union method|enable_rev_strand_match: False method|otu_picking_method: uclust method|max_accepts: 1 input_seqs_filepath: pick_otus/seqs.fna method|max_rejects: 8 method|denovo_otu_id_prefix: denovo method|optimal_uclust: False method|word_length: 8 method|exact_uclust: False method|similarity: 0.97 method|suppress_prefilter_exact_match: False trie_prefilter: False method|stepwords: 8 method|user_sort: False |
attributes: name attributes: name |
pick_otus/seqs.fna name |