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fcgr

Installation

git clone https://github.com/pg-space/fcgr.git
cd fcgr
mkdir build ; cd build
cmake -DCMAKE_BUILD_TYPE=Release ..
make
cd ..

Usage

fcgr takes as input the list of KMC databases (prefix used while running KMC). For each of them, it outputs the FCGR in .npy format.

./fcgr <in-kmc-list>

Example

cd example
KMC=../build/kmc-prefix/src/kmc/bin/kmc
for fa in *.fa ; do $KMC -v -m4 -sm -b -ci0 -cs65535 -k6 -fm $fa $fa . ; done
ls $PWD/*.fa > list
../fcgr list
ls *.npy # <- these are the FCGR