katerinakazantseva / strainyLinks
Graph-based assembly phasing
☆85Updated 3 months ago
Alternatives and similar repositories for strainy
Users that are interested in strainy are comparing it to the libraries listed below
Sorting:
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- A tool for removing redundant genomes from a set of assemblies☆73Updated last year
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆60Updated last month
- Bifrost graph gene caller.☆95Updated 10 months ago
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 5 months ago
- whole genome MLST analysis☆46Updated last month
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Split k-mer analysis – version 2☆87Updated 2 weeks ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆72Updated last month
- Recombination-free trees☆59Updated 4 months ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆49Updated 2 months ago
- Adapter trimmer for Oxford Nanopore reads using ab initio method☆45Updated 8 months ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆43Updated 2 years ago
- a collection of scripts for organising bacterial genomes by species☆77Updated 3 years ago
- Nanomotif - a tool for identifying methylated motifs in metagenomic samples☆29Updated 3 weeks ago
- tools for assessing the accuracy of genome assemblies☆34Updated last year
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- ☆36Updated 3 years ago
- Identify phage regions in bacterial genomes for masking purposes☆34Updated 5 years ago
- Identify short variants and structural variants from raw sequencing data or genomic sequences☆31Updated last year
- Detecting multi-genome synteny using minimizer graph mapping☆79Updated 3 months ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆49Updated 2 weeks ago
- Gene-flank analysis tool☆28Updated 7 months ago
- Calculate confidence scores from Kraken2 output☆22Updated last year
- 🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs☆63Updated 10 months ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 2 weeks ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆36Updated 3 months ago
- Reference-free clustering and consensus forming of long-read amplicon sequencing☆59Updated 3 months ago