bede / deaconLinks
Fast DNA search and [host] depletion using minimizers
☆96Updated 3 weeks ago
Alternatives and similar repositories for deacon
Users that are interested in deacon are comparing it to the libraries listed below
Sorting:
- Split k-mer analysis – version 2☆103Updated 2 weeks ago
- A new high-resolution long-read metagenome assembler for even noisy reads☆116Updated 2 weeks ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆44Updated 9 months ago
- Genome size estimation from long read overlaps☆79Updated last month
- Bifrost graph gene caller.☆97Updated 3 months ago
- Recombination-free trees☆63Updated 4 months ago
- Strain resolver for metagenomics☆80Updated last year
- A Python library that exposes features from IQ-TREE - efficient software for phylogenomic inference☆39Updated 2 weeks ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Updated 8 months ago
- Remove human reads from a sequencing run☆47Updated 3 weeks ago
- Efficient phylogenetic tree inference for massive taxonomic datasets☆136Updated 9 months ago
- Precise host read removal☆112Updated 4 months ago
- ☆36Updated 8 months ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆100Updated 2 weeks ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 6 months ago
- Overview of our data for microbial genomic benchmarking☆32Updated 3 months ago
- More scalable dereplication for metagenome assembled genomes☆75Updated 3 weeks ago
- a collection of scripts for organising bacterial genomes by species☆81Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- Extremely fast and accurate Nanopore demultiplexing☆73Updated last month
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆47Updated 2 months ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated 3 months ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 5 months ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Updated last year
- An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.☆47Updated 2 weeks ago
- A tool for removing redundant genomes from a set of assemblies☆78Updated 3 months ago
- Nail is an Alignment Inference tooL☆54Updated 3 weeks ago
- Efficient calculation of phylogenetic distance matrices.☆49Updated last year
- Automated strain separation of low-complexity metagenomes☆52Updated 4 years ago