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bamCompare tool metadata

Miscellaneous

Name: bamCompare

Description: normalizes and compares two BAM files to obtain the ratio, log2ratio or difference between them

Id: deeptools_bam_compare

Guid: toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_compare/deeptools_bam_compare/2.4.1.0

Version: 2.4.1.0

Version command string: bamCompare --version

Display in tool panel: True

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

toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_compare/deeptools_bam_compare/2.4.2.0

toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_compare/deeptools_bam_compare/2.4.1.0 (this tool)

toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_compare/deeptools_bam_compare/2.3.6.0

toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_compare/deeptools_bam_compare/2.3.5.0

toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_compare/deeptools_bam_compare/2.2.3.0

toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_compare/deeptools_bam_compare/2.2.2.0

toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_compare/deeptools_bam_compare/2.1.0.0

toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_compare/deeptools_bam_compare/2.0.1.0

deeptools_bam_compare

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

Requirements:

name

version

type

python

2.7.10

package

deeptools

2.4.1

package

Functional tests

name

inputs

outputs

required files

Test-1

bamFile2: bowtie2 test1.bam
outFileFormat: bedgraph
advancedOpt|showAdvancedOpt: no
bamFile1: bowtie2 test1.bam
comparison|type: ratio
binSize: 5

outFileName: bamCompare_result1.bg

bowtie2 test1.bam
bamCompare_result1.bg

Test-2

bamFile2: bowtie2 test1.bam
outFileFormat: bigwig
advancedOpt|showAdvancedOpt: yes
bamFile1: bowtie2 test1.bam
comparison|type: ratio
binSize: 10

outFileName: bamCompare_result2.bw

bowtie2 test1.bam
bamCompare_result2.bw