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idba-software

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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

Usage

See versions of idba which are available:

$ module avail idba

Load one version into your environment and run it:

$ module load idba/1.1.2
$ idba_hybrid

Installation

Notes from the sysadmin during installation:

$ 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
idba-software.txt · Last modified: 2020/03/15 13:44 by aorth