Velvet

Sequence assembler for very short reads.

• Version: 1.2.10-kmer111
• MAXKMERLENGTH: 111
• Added: November, 2012
• Updated: September, 2017
• Link: https://www.ebi.ac.uk/~zerbino/velvet/

See versions of velvet which are available:

$ module avail velvet

• https://wiki.hpcc.msu.edu/display/Bioinfo/Velvet+and+Oases

Notes from the sysadmin during installation:

$ cd /tmp
$ wget wget https://www.ebi.ac.uk/~zerbino/velvet/velvet_1.2.10.tgz
$ tar xf velvet_1.2.10.tgz
$ cd velvet_1.2.10
$ scl enable devtoolset-4 bash
$ sed -i 's/MAXKMERLENGTH=[0-9].*$/MAXKMERLENGTH=111/' Makefile
$ make OPENMP=1
$ make cleanobj
$ sudo cp -r . /export/apps/velvet/1.2.10-kmer111