Repository revision

Revision: 0:c6a3a93a237e

Repository 'voom_transform'

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/erasmus-medical-center/voom_transform

Voom transform tool metadata

Miscellaneous

Name: Voom transform

Description: transform count data to fit linear modelling

Id: voom_transform

Guid: toolshed.g2.bx.psu.edu/repos/erasmus-medical-center/voom_transform/voom_transform/3.29.0-0

Version: 3.29.0-0

Version command string: echo $(R --version | grep -i version | head -n 1)", Limma: "$(R --vanilla --slave -e "library(limma) ; cat(sessionInfo()\$otherPkgs\$limma\$Version)")

Display in tool panel: True

Version lineage of this tool (guids ordered most recent to oldest)

toolshed.g2.bx.psu.edu/repos/erasmus-medical-center/voom_transform/voom_transform/3.29.0-0 (this tool)

voom_transform

Requirements (dependencies defined in the <requirements> tag set)

Requirements:

name

version

type

bioconductor-limma

3.29.0

package

r-getopt

1.20.0

package

Additional information about this tool

Command:

Rscript
            #if str($include_rdata) == 'true'
                --save
            #end if
            '${__tool_directory__}/voom_transform.R'
            -e '${input_select.expression_matrix}'
            -t '${output_matrix}'
        
        #if str($include_rdata) == 'true'
            && cp '.RData' '$output_rdata'
        #end if

Interpreter: None

Forces a history refresh: False

Functional tests

name

inputs

outputs

required files

Test-1

input_select|expression_matrix: em.txt
input_select|input_format: 1

output_matrix: em_transformed.txt

em.txt
em_transformed.txt