ILRI Research Computing

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====== RepeatModeler ======
RepeatModeler is a de novo transposable element (TE) family identification and modeling package. At the heart of RepeatModeler are three de-novo repeat finding programs ( RECON, RepeatScout and LtrHarvest/Ltr_retriever ) which employ complementary computational methods for identifying repeat element boundaries and family relationships from sequence data.

===== Information =====

  * Version: 2.0.1
  * Added: March, 2021
  * Link: http://www.repeatmasker.org/RepeatModeler/

===== Usage =====

See versions of repeatmodeler which are available:
<code>$ module avail repeatmodeler</code>

Load one version into your environment and run it:
<code>$ module load repeatmasker/2.0.1
$ RepeatModeler</code>

===== Installation ======
Notes from the sysadmin during installation:

<code>$ cd /tmp
$ wget http://www.repeatmasker.org/RepeatModeler/RepeatModeler-2.0.1.tar.gz
$ tar xf RepeatModeler-2.0.1.tar.gz 
$ cd RepeatModeler-2.0.1
$ sudo yum install perl-File-Which.noarch
$ perl ./configure
$ sudo mkdir -p /export/apps/repeatmodeler/2.0.1
$ sudo cp -r * /export/apps/repeatmodeler/2.0.1</code>