Read-filter

Tool for mapping-free classification of reads, using Bloom filter.

Dependencies

Read-filter requires the following libraries and tools:

• sdsl-lite v2.1.1
• KMC v3
• htslib v1.8

This repository comes with them as submodules.

Download and Installation

In order to install the repository run the followings steps. First clone the repository and move into it.

git clone --recursive https://github.com/tmunimib/read-filter.git
cd read-filter

If you have KMC3, sdsl-lite, and htslib already installed you can skip the following commands. Please Note: KMC seems to not compile using g++-7 under Ubuntu; please switch to g++-6 in this step to avoid compilation errors.

chmod +x Library_installer.sh
./Library_installer.sh

Now you can compile read-filter from the root of you local copy of the repository.

cd <path-to-read-filter-local-repo>
make