Repository cdhit
Name: cdhit
Owner: bebatut
Synopsis: Cd-Hit is a very widely used program for clustering and comparing protein or nucleotide sequences
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/bebatut/cdhit
Type: unrestricted
Revision: 1:93f25d52cfa5
This revision can be installed: True
Times cloned / installed: 746

Repository README files - may contain important installation or license information

CD_HIT memory usage

By default, maximum of 4Gb is attributed to CD_HIT.

To change the maximum memory usage, you can edit the CD_HIT_MEM_OPTIONS in the file:

<tool_dependency_dir>/cd-hit/4.6.4/bebatut/cdhit/<hash_string>/env.sh

For example to increase to 8Gb, you will write:

CD_HIT_MEM_OPTIONS='-M 8000'

Dependencies of this repository

Name Version Type
cd-hit 4.6.4 package

Contents of this repository

Name Description Version Minimum Galaxy Version
Cluster a protein dataset into representative sequences 1.3 16.01
Cluster a nucleotide dataset into representative sequences 1.3 16.01

Categories
Fasta Manipulation - Tools for manipulating fasta data
Sequence Analysis - Tools for performing Protein and DNA/RNA analysis