Dependencies

Install dependencies

fdog requires the following dependencies

ncbi-blast+
hmmer
clustalw
mafft
muscle

On Ubuntu, those tools can be installed using apt-get. For example:

sudo apt-get update
sudo apt-get -y install ncbi-blast+ hmmer clustalw mafft muscle

In MacOS, we suggest using Homebrew as a replacement for apt-get. After having Homebrew, you can install tools/libraries by using the command

brew install blast hmmer clustalw mafft muscle

If you are using a Conda environment to install fDOG, probably those dependencies will be automatically installed when you run fdog.setup. If not, you can manually do that by using conda install or mamba install:

conda install -c bioconda blast hmmer clustalw mafft muscle -y

Note: Package name for ncbi-blast+ on Anaconda is blast