KOMB is a tool for fast identification of unitigs of interest in metagenomes. KOMB introduces the concept of a Hybrid Unitig Graph (an extension to compacted de Bruijn graphs) and relies on k-core and K-truss decomposition algorithms.
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Simplified CLI and improved performance with GGCAT and BWA MEM #2
Added KOMB.py wrapper for running the whole pipeline: GGCAT => BWA MEM => KOMB. Modified komb2.cpp to take in unitig and read mapping files (no longer runs the whole pipeline from a single C++ program). Added some basic logging and error reporting for intermediate steps. Pipeline driver script also reports wall clock times for each major step.
Added
KOMB.pywrapper for running the whole pipeline: GGCAT => BWA MEM => KOMB. Modified komb2.cpp to take in unitig and read mapping files (no longer runs the whole pipeline from a single C++ program). Added some basic logging and error reporting for intermediate steps. Pipeline driver script also reports wall clock times for each major step.