rvicedomini / strainberry
Automated strain separation of low-complexity metagenomes
☆51Updated 3 years ago
Alternatives and similar repositories for strainberry:
Users that are interested in strainberry are comparing it to the libraries listed below
- reference-based long read assemblies of bacterial genomes☆48Updated 3 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆51Updated 3 weeks ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated last week
- Recombination-free trees☆58Updated last month
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated 2 months ago
- Discover and annotate the virome☆41Updated 3 weeks ago
- tools for assessing the accuracy of genome assemblies☆34Updated last year
- A tool for removing redundant genomes from a set of assemblies☆71Updated last year
- Identify phage regions in bacterial genomes for masking purposes☆30Updated 5 years ago
- Split Kmer Analysis☆63Updated 2 years ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- Bacterial GWAS analysis☆40Updated 2 weeks ago
- ☆52Updated 3 years ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆31Updated 2 years ago
- Jaeger is a quick and precise tool for detecting phages in sequence assemblies.☆30Updated this week
- A pipeline for bioinformatics analysis of bacterial genomes☆28Updated this week
- Nanomotif - a tool for identifying methylated motifs in metagenomic samples☆26Updated 2 weeks ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆40Updated 6 months ago
- Gene-flank analysis tool☆27Updated 4 months ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆46Updated last month
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆48Updated last year
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆21Updated 2 years ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆27Updated 6 months ago
- ☆20Updated 8 months ago
- Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes☆58Updated 4 months ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆44Updated 4 years ago
- Downstream processing of VAMB binning for Viral Elucidation☆49Updated 10 months ago
- whole genome MLST analysis☆42Updated last month
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆44Updated last week