Repository revision

Revision: 10:570505540a7b

Repository 'khmer_count_median'

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/khmer_count_median

khmer: Count Median tool metadata

Miscellaneous

Name: khmer: Count Median

Description: Count the median/avg k-mer abundance for each sequence

Id: khmer_count_median

Guid: toolshed.g2.bx.psu.edu/repos/iuc/khmer_count_median/khmer_count_median/3.0.0a3+galaxy3

Version: 3.0.0a3+galaxy3

Version command string: count-median.py --version 2>&1 | tail -n 1 | cut -d ' ' -f 2

Display in tool panel: True

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

toolshed.g2.bx.psu.edu/repos/iuc/khmer_count_median/khmer_count_median/3.0.0a3+galaxy3 (this tool)

toolshed.g2.bx.psu.edu/repos/iuc/khmer_count_median/khmer_count_median/3.0.0a3+galaxy2

toolshed.g2.bx.psu.edu/repos/iuc/khmer_count_median/khmer_count_median/3.0.0a3+galaxy1

toolshed.g2.bx.psu.edu/repos/iuc/khmer_count_median/khmer_count_median/3.0.0a1.0

toolshed.g2.bx.psu.edu/repos/iuc/khmer_count_median/khmer_count_median/2.0.0

khmer_count_median

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

Requirements:

name

version

type

khmer

3.0.0a3

package

Additional information about this tool

Command:

set -u &&
count-median.py
$input_countgraph_filename
$input_sequence_filename
$output_summary_filename

Interpreter: None

Forces a history refresh: False

Functional tests

name

inputs

outputs

required files

Test-1

input_sequence_filename: test-abund-read-2.fa
input_countgraph_filename: test-abund-read-2.oxlicg

name: value

test-abund-read-2.fa
test-abund-read-2.oxlicg
value