Iterative Vecscreen Pipeline
c++11 (or later): Required to compile
VecScreen (included in NCBI C++ Toolkit, https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/#install)
UniVec Database (https://www.ncbi.nlm.nih.gov/tools/vecscreen/univec/)
Just do
make
You can find executable files in bin directory.
If you want, add a line in ~/.bashrc (or .bash_profile)
export PATH=/path-to-here/bin:$PATH
IVP <draft_genome.fa(sta)> <Vector_file> <working_dir>
draft_genome: To be updated by removing vector contamination (fasta)
Vector_file: File containing vector sequences, e.g. UniVec (fasta)
working_dir: If working_dir exists, it will be overwitten.
Jang-il Sohn
Bioinformatics and Genomics Lab.
Hanyang University Seoul Korea