ILRI Research Computing

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====== IDBA ======
IDBA-UD is a iterative De Bruijn Graph De Novo Assembler for Short Reads Sequencing data with Highly Uneven Sequencing Depth. It is an extension of IDBA algorithm.

===== Information =====

  * Version: 1.1.2
  * Added: March, 2020
  * Link: https://i.cs.hku.hk/~alse/hkubrg/projects/idba_ud/index.html

===== Usage =====

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

Load one version into your environment and run it:

<code>$ module load idba/1.1.2
$ idba_hybrid</code>

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

<code>
$ cd /tmp
$ wget https://github.com/loneknightpy/idba/releases/download/1.1.2/idba-1.1.2.tar.gz
$ tar xf idba-1.1.2.tar.gz 
$ cd idba-1.1.2
$ ./configure --prefix=/export/apps/idba/1.1.2
$ make
$ sudo mkdir -p /export/apps/idba/1.1.2
$ sudo chown aorth /export/apps/idba/1.1.2
$ sed -i '1s/python/python2/' script/scan.py
$ make install
$ sudo chown -R root:root /export/apps/idba/1.1.2
</code>