Oliver Schwengers

bakta. Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

platon. Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

referenceseeker. Rapid determination of appropriate reference genomes.

asap. A scalable bacterial genome assembly, annotation and analysis pipeline

tadrep. Targeted Detection and Reconstruction of Plasmids

ANIclustermap. A tool for drawing ANI clustermap between all-vs-all microbial genomes using fastANI & seaborn

oneliners. Useful bash one-liners for bioinformatics.

Awesome-Bioinformatics. A curated list of awesome Bioinformatics libraries and software.

fastp. An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

mummer2circos. Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments

py_nf. Python library to execute batches of jobs using nextflow.