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GffCompare tool metadata

Miscellaneous

Name: GffCompare

Description: compare assembled transcripts to a reference annotation

Id: gffcompare

Guid: toolshed.g2.bx.psu.edu/repos/iuc/gffcompare/gffcompare/0.10.6

Version: 0.10.6

Version command string: gffcompare -v | awk '{print $2}'

Display in tool panel: True

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

toolshed.g2.bx.psu.edu/repos/iuc/gffcompare/gffcompare/0.11.2

toolshed.g2.bx.psu.edu/repos/iuc/gffcompare/gffcompare/0.10.6 (this tool)

toolshed.g2.bx.psu.edu/repos/iuc/gffcompare/gffcompare/0.9.8+galaxy1

toolshed.g2.bx.psu.edu/repos/iuc/gffcompare/gffcompare/0.9.8

gffcompare

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

Requirements:

name

version

type

gffcompare

0.10.6

package

Functional tests

name

inputs

outputs

required files

Test-1

max_dist_group: 100
seq_data|use_seq_data: No
max_dist_exon: 100
annotation|ignore_nonoverlapping_reference: True
annotation|ignore_nonoverlapping_transfrags: False
gffinputs: ['gffcompare_in1.gtf', 'gffcompare_in2.gtf']
discard_single_exon:
annotation|use_ref_annotation: Yes
annotation|reference_annotation: gffcompare_in3.gtf

attributes: name
attributes: name
attributes: name
attributes: name

gffcompare_in1.gtf
gffcompare_in2.gtf
gffcompare_in3.gtf
name

Test-2

max_dist_group: 100
seq_data|use_seq_data: No
max_dist_exon: 100
annotation|ignore_nonoverlapping_reference: True
annotation|ignore_nonoverlapping_transfrags: False
annotation|refmap_tmap:
gffinputs: gffcompare_in4.gtf
discard_single_exon:
annotation|use_ref_annotation: Yes
annotation|reference_annotation: gffcompare_in5.gtf

attributes: name
attributes: name
attributes: name
attributes: name

gffcompare_in4.gtf
gffcompare_in5.gtf
name