Mercurial > repos > iuc > extract_metaphlan_database

comparison test-data/SRS014464-Anterior_nares-abundances.tabular @ 4:97ad0d817a45 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaphlan/ commit 2cec4cbdc43f84720af3e22eb008e9788481ce00"
author iuc
date Wed, 02 Feb 2022 22:02:12 +0000
parents 5b2f8b6a3609
children
comparison
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3:c11805a111ea 4:97ad0d817a45
1 #custom_db 1 #custom_db
2 #mpa_v21_CHOCOPhlAnxxx_2
2 #/home/bebatut/miniconda3/envs/mulled-v1-b4915a464cf72db4053ec566c65e3f5f431691323f08f9b6b1c9ecfc4f8b9c88/bin/metaphlan in --input_type fasta --read_min_len 70 --bowtie2db ref_db/ --index custom_db --bt2_ps very-sensitive --min_mapq_val 5 -t rel_ab --tax_lev a --min_cu_len 2000 --add_viruses --stat_q 0.2 --perc_nonzero 0.33 --avoid_disqm --sample_id_key SampleID --sample_id Metaphlan_Analysis -o /tmp/tmptu3575j7/files/000/dataset_19.dat --bowtie2out bowtie2out -s /tmp/tmptu3575j7/files/000/dataset_21.dat --biom /tmp/tmptu3575j7/files/000/dataset_22.dat --nproc 1 3 #/home/bebatut/miniconda3/envs/mulled-v1-b4915a464cf72db4053ec566c65e3f5f431691323f08f9b6b1c9ecfc4f8b9c88/bin/metaphlan in --input_type fasta --read_min_len 70 --bowtie2db ref_db/ --index custom_db --bt2_ps very-sensitive --min_mapq_val 5 -t rel_ab --tax_lev a --min_cu_len 2000 --add_viruses --stat_q 0.2 --perc_nonzero 0.33 --avoid_disqm --sample_id_key SampleID --sample_id Metaphlan_Analysis -o /tmp/tmptu3575j7/files/000/dataset_19.dat --bowtie2out bowtie2out -s /tmp/tmptu3575j7/files/000/dataset_21.dat --biom /tmp/tmptu3575j7/files/000/dataset_22.dat --nproc 1
3 #SampleID Metaphlan_Analysis 4 #SampleID Metaphlan_Analysis
4 #clade_name NCBI_tax_id relative_abundance additional_species 5 #clade_name NCBI_tax_id relative_abundance additional_species
5 k__Bacteria 2 100.0 6 k__Bacteria 2 100.0
6 k__Bacteria|p__Proteobacteria 2|1224 52.20019 7 k__Bacteria|p__Proteobacteria 2|1224 52.20019