raufs / skDERLinks
skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.
☆48Updated 2 weeks ago
Alternatives and similar repositories for skDER
Users that are interested in skDER are comparing it to the libraries listed below
Sorting:
- Calculate assocations between genes and traits☆25Updated 6 months ago
- Bacterial GWAS analysis☆43Updated 2 months ago
- Downstream processing of VAMB binning for Viral Elucidation☆50Updated last year
- Discover and annotate the virome☆49Updated 3 weeks ago
- Microbial agile accurate SNP Typer☆29Updated last year
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 4 months ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆30Updated 10 months ago
- Workflow to assign Taxonomy to a bacteriophage genome isolate☆32Updated 5 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆61Updated 3 months ago
- Jaeger is a quick and precise tool for detecting phages in sequence assemblies.☆34Updated last week
- ☆24Updated 7 months ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆21Updated last month
- EzAAI - High Throughput Prokaryotic AAI Calculator☆44Updated last month
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- MAGScoT - a MAG scoring and refinement tool☆36Updated 11 months ago
- Classify metagenomic contigs as eukaryotic or prokaryotic☆39Updated 2 years ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆62Updated 2 weeks ago
- Recombination-free trees☆60Updated 3 weeks ago
- Pipeline for metagenome and metatranscriptome joint assembly☆21Updated 2 years ago
- A toolkit for prokaryotic comparative genomics☆50Updated 7 months ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆37Updated 3 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆26Updated 3 years ago
- KEGG Module Evaluation Tool☆31Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆52Updated 5 months ago
- Automatic eukaryotic taxonomic classification☆28Updated 4 months ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆30Updated 2 months ago
- alignment-free coverage calculation for metagenomic binning >100 times faster☆46Updated 6 months ago
- A taxonomic classifier of plasmids☆28Updated 4 years ago