zga

Prokaryotic genome assembly and annotation pipeline. Wide range of supported reads: Illumina, Oxford Nanopore, PacBio, BGI. Short read multi-threaded processing: QC, filtering, trimming, overlapped pairs merging. Assembling from short reads, long reads or hybrid assembly using modern and powerful assemblers: SPAdes, Unicycler or Flye. Quality control of assembly: completeness and contamination assessment with CheckM as well as PhiX detection. Fast annotation of bacterial and archeal genome assemblies with DFAST . No High Performance Computing needed. The pipeline works on laptop or desktop.