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velvet-software

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Velvet

Sequence assembler for very short reads.

Information

Usage

See versions of velvet which are available

module avail velvet

Memory Estimating

The following tool may be helpful in estimating memory requirements for your velvet run:

Make sure you substitute in the correct value for "k" based on the MAXKMERLENGTH used in your Velvet build.

Extra information

Installation

Notes from the sysadmin during installation:

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-1.1 bash
sed 's/MAXKMERLENGTH=[0-9].*$/MAXKMERLENGTH=64/' Makefile > Makefile.kmer64
make -f Makefile.kmer64
make -f Makefile.kmer64 cleanobj
sudo cp -r . /export/apps/velvet/1.2.10-kmer64
velvet-software.txt · Last modified: 2014/05/27 13:24 by aorth