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idba-software [2020/03/15 13:44] (current)
aorth created
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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>​
idba-software.txt · Last modified: 2020/03/15 13:44 by aorth