Repository revision
6:65e5f9caefcc

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

Normalize tool metadata
Miscellaneous
Normalize
the relative abundance of each OTU by the predicted number of 16S copies
picrust_normalize_by_copy_number
toolshed.g2.bx.psu.edu/repos/iuc/picrust_normalize_by_copy_number/picrust_normalize_by_copy_number/1.1.1.1
1.1.1.1
predict_metagenomes.py --version | cut -d" " -f3
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/iuc/picrust_normalize_by_copy_number/picrust_normalize_by_copy_number/1.1.1.1 (this tool)
toolshed.g2.bx.psu.edu/repos/iuc/picrust_normalize_by_copy_number/picrust_normalize_by_copy_number/1.1.1.0
toolshed.g2.bx.psu.edu/repos/iuc/picrust_normalize_by_copy_number/picrust_normalize_by_copy_number/1.0.1.0
picrust_normalize_by_copy_number
Requirements (dependencies defined in the <requirements> tag set)
name version type
picrust 1.1.1 package
Additional information about this tool
normalize_by_copy_number.py
            -i '$input_data'
            -o tempbiom
            -c '$gg.precalc'

            
        #if $output_type == "hdf5":
            && mv tempbiom '$out_biom'
        #elif $output_type == "tsv":
            && biom convert -i tempbiom -o '$out_biom' --to-tsv
        #else:
            && biom convert -i tempbiom -o '$out_biom' --to-json
        #end if
None
False
Functional tests
name inputs outputs required files
Test-1 input_data: closed_picked_otus.biom
gg|precalc: 16S_13_5_precalculated_minimal.tab
gg|source: hist
output_type: json
 name: value
 closed_picked_otus.biom
16S_13_5_precalculated_minimal.tab
value
Test-2 input_data: closed_picked_otus.tab
gg|precalc: 16S_13_5_precalculated_minimal.tab
gg|source: hist
output_type: tsv
 name: value
 closed_picked_otus.tab
16S_13_5_precalculated_minimal.tab
value