tseemann / snasm
Assembly based core SNP alignments
☆7Updated last year
Related projects ⓘ
Alternatives and complementary repositories for snasm
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and met…☆40Updated 3 weeks ago
- ☆24Updated last month
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆24Updated 2 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆39Updated this week
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆21Updated last year
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆29Updated 2 years ago
- ☆17Updated 2 months ago
- Calculate assocations between genes and traits☆19Updated last month
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 3 years ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆17Updated last year
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆29Updated last year
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆18Updated 8 months ago
- Bacterial GWAS analysis☆32Updated last month
- Prophage Activity Estimator☆26Updated 5 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- ☆23Updated last year
- IslandPath standalone software☆31Updated last year
- MAGScoT - a MAG scoring and refinement tool☆28Updated last month
- Discover and annotate the virome☆31Updated last month
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆24Updated 7 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆29Updated last month
- Strain-level haplotyping for metagenomes with short or long-reads.☆41Updated 4 months ago
- Downstream processing of VAMB binning for Viral Elucidation☆46Updated 4 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆25Updated 2 weeks ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆22Updated 4 months ago
- Gene Absence Presence Identification tool.☆26Updated last year
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆25Updated last month
- ☆30Updated 11 months ago
- ☆23Updated 9 months ago
- viralFlye pipeline☆19Updated 3 months ago