Stars
Tiberius is a deep learning gene finder.
Amplicon sequencing variants from 16s ONT R10.4 / HiFi long reads
A new high-resolution long-read metagenome assembler for even noisy reads
A tool for generating consensus long-read assemblies for bacterial genomes
Rapid & standardized genome annotation using protein structural information
A tool for making quick phylogenetic trees of Nucleocytoviricota marker genes.
Viral protein family functional prediction using protein language models
starfish: a modular toolkit for giant mobile element annotation
Pipeline for analysis of long DNA reads (in this case PacBio) for fungi metabarcoding using SSU, ITS and LSU as marker region
Pipeline for metabarcoding of fungi with more than one marker (5.8S and ITS2)
Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.
Snakemake workflow for bacterial genome assembly + polishing for Oxford Nanopore (ONT) sequencing using multiple tools.
A list of ggplot2 extensions
Supplementary code and data for mobile genetic elements in Prochlorococcus
Thunderbird for Android – Open Source Email App for Android (fka K-9 Mail)
customizable pipeline to identify viral sequences from (meta)genomic data
Bacterial Annotation by Learned Representation of Genes
Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly
Constructing pan genome graphs from "protein family" assignments
De novo assembler for single molecule sequencing reads using repeat graphs
eBay's TSV Utilities: Command line tools for large, tabular data files. Filtering, statistics, sampling, joins and more.
Simple library for asynchronous processing in Emacs
Phylogenetic orthology inference for comparative genomics