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bedtools Compute both the depth and breadth of coverage tool metadata

Miscellaneous

Name: bedtools Compute both the depth and breadth of coverage

Description: of features in file B on the features in file A (bedtools coverage)

Id: bedtools_coveragebed

Guid: toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.29.2

Version: 2.29.2

Version command string: bedtools --version

Display in tool panel: True

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

toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0

toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.29.2 (this tool)

toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.19.1

bedtools_coveragebed

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

Requirements:

name

version

type

bedtools

2.29.2

package

samtools

1.9

package

Functional tests

name

inputs

outputs

required files

Test-1

inputA: coverageBedA.bed
reduce_or_iterate|inputB: coverageBedB.bed

attributes: name

coverageBedA.bed
coverageBedB.bed
name

Test-2

inputA: multiCov1.bed
reduce_or_iterate|inputB: srma_in3.bam

attributes: name

multiCov1.bed
srma_in3.bam
name

Test-3

inputA: multiCov1.bed
reduce_or_iterate|reduce_or_iterate_selector: reduce
reduce_or_iterate|inputB: srma_in3.bam

attributes: name

multiCov1.bed
srma_in3.bam
name

Test-4

inputA: coverageBedA.bed
reduce_or_iterate|inputB: coverageBedB.bed
overlap_b: 1

attributes: name

coverageBedA.bed
coverageBedB.bed
name

Test-5

inputA: coverageBedA.bed
overlap_a: 1E-5
reduce_or_iterate|inputB: coverageBedB.bed
reciprocal_overlap: True

attributes: name

coverageBedA.bed
coverageBedB.bed
name