Repository revision
5:09c1bbec1032

Repository 'humann2_barplot'
hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/humann2_barplot

Barplot tool metadata
Miscellaneous
Barplot
stratified HUMAnN2 features
humann2_barplot
toolshed.g2.bx.psu.edu/repos/iuc/humann2_barplot/humann2_barplot/0.11.1.1
0.11.1.1
humann2 --version
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/iuc/humann2_barplot/humann2_barplot/0.11.1.1 (this tool)
toolshed.g2.bx.psu.edu/repos/iuc/humann2_barplot/humann2_barplot/0.11.1.0
humann2_barplot
Requirements (dependencies defined in the <requirements> tag set)
name version type
humann2 0.11.1 package
matplotlib 2.0.2 package
numpy 1.13.1 package
scipy 0.19.1 package
Additional information about this tool
humann2_barplot
    --input '$input'
    --focal-feature '$focal_feature'
    #if str($top_strata) != ''
        --top-strata '$top_strata'
    #end if
    --sort $sort
    --last-metadatum '$last_metadatum'
    --focal-metadatum '$focal_metadatum'
    #if str($colormap) != ''
        --colormap '$'colormap'
    #end if
    #if str($meta_colormap) != ''
        --meta-colormap '$meta_colormap'
    #end if
    $exclude_unclassified
    --scaling '$scaling'
    $as_genera       
    $grid            
    $remove_zeroes   
    --width '$width'
    --dimensions '$height' '$width'
    #if str($ylims) != ''
        --ylims '$ylims'
    #end if
    #if $format == 'png'
        --output 'output.png'
    #elif $format == 'pdf'
        --output 'output.pdf'
    #elif $format == 'svg'
        --output 'output.svg'
    #end if
    
None
False
Functional tests
name inputs outputs required files
Test-1 input: hmp_pathabund.txt
focal_feature: ANAGLYCOLYSIS-PWY
sort: none
focal_metadatum: STSite
last_metadatum: STSite
exclude_unclassified: False
scaling: none
as_genera: False
grid: False
remove_zeroes: False
width: 4
height: 8
format: png
name: value
hmp_pathabund.txt
value
Test-2 input: hmp_pathabund.txt
focal_feature: ANAGLYCOLYSIS-PWY
sort: sum
focal_metadatum: STSite
last_metadatum: STSite
exclude_unclassified: False
scaling: none
as_genera: False
grid: False
remove_zeroes: False
width: 4
height: 8
format: pdf
name: value
hmp_pathabund.txt
value
Test-3 input: hmp_pathabund.txt
focal_feature: ANAGLYCOLYSIS-PWY
sort: metadata
focal_metadatum: STSite
last_metadatum: STSite
exclude_unclassified: True
scaling: none
as_genera: True
grid: True
remove_zeroes: True
width: 4
height: 8
format: svg
name: value
hmp_pathabund.txt
value
Test-4 input: hmp_pathabund.txt
focal_feature: ANAGLYCOLYSIS-PWY
top_strata: 12
sort: sum
focal_metadatum: STSite
last_metadatum: STSite
exclude_unclassified: False
scaling: normalize
as_genera: False
grid: False
remove_zeroes: False
width: 4
height: 8
format: png
name: value
hmp_pathabund.txt
value