rvicedomini / strainberryLinks
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
Sorting:
- reference-based long read assemblies of bacterial genomes☆49Updated 3 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆51Updated 2 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last week
- Split Kmer Analysis☆65Updated 3 years ago
- Recombination-free trees☆58Updated 3 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- A tool for removing redundant genomes from a set of assemblies☆71Updated last year
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆28Updated 8 months ago
- tools for assessing the accuracy of genome assemblies☆34Updated last year
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- IslandPath standalone software☆32Updated last year
- Bacterial GWAS analysis☆40Updated 3 weeks ago
- Nanomotif - a tool for identifying methylated motifs in metagenomic samples☆27Updated last week
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆46Updated 2 months ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆49Updated last year
- 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
- Fast k-mer based tool for multi locus sequence typing (MLST)☆44Updated 4 years ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆25Updated 2 months ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆69Updated this week
- Gene-flank analysis tool☆27Updated 6 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated 2 years ago
- GTDB taxonomy taxdump files with trackable TaxIds☆54Updated last month
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆58Updated last year
- EzAAI - High Throughput Prokaryotic AAI Calculator☆42Updated 8 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆36Updated 2 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- Plasmid analysis using rearrangement distances☆42Updated 3 weeks ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated last month
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆48Updated 2 weeks ago