Repository revision

Revision: 9:d2784e70dd19

Repository 'graphclust_fasta_to_gspan'

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_fasta_to_gspan

fasta_to_gspan tool metadata

Miscellaneous

Name: fasta_to_gspan

Description:

Id: gspan

Guid: toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_fasta_to_gspan/gspan/0.4

Version: 0.4

Version command string: None

Display in tool panel: True

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

toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_fasta_to_gspan/gspan/0.4 (this tool)

toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_fasta_to_gspan/gspan/0.3

toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_fasta_to_gspan/gspan/0.2

toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_fasta_to_gspan/gspan/0.1

gspan

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

Requirements:

name

version

type

graphclust-wrappers

0.6.0

package

rnashapes

2.1.6

package

Additional information about this tool

Command:

fasta2shrep_gspan.pl
            --fasta '$dataFasta'
            $i_crop_unpaired_ends
            $i_abstr
            $i_stacks
            -t '3=0,5=80'
            -M $M
            -c $rel_energy_range
            -win $wins
            -shift $shift
            $u
            $seq_graph_t
            -group $group

Interpreter: None

Forces a history refresh: False

Functional tests

name

inputs

outputs

required files

Test-1

group: 10000
wins: 40,150
M: 5
dataFasta: data.fasta
i_crop_unpaired_ends: False
i_abstr: False
shift: 30
u: True
rel_energy_range: 20
seq_graph_t: True
i_stacks: True

data.fasta