bhattlab / lathe
A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
☆70Updated 3 years ago
Alternatives and similar repositories for lathe:
Users that are interested in lathe are comparing it to the libraries listed below
- A tool for removing redundant genomes from a set of assemblies☆70Updated last year
- IS mapping software☆53Updated 3 years ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆46Updated last month
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆18Updated 4 years ago
- tools for assessing the accuracy of genome assemblies☆34Updated 11 months ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆43Updated 4 years ago
- whole genome MLST analysis☆41Updated this week
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆60Updated 2 months ago
- Synteny Imager☆60Updated 6 months ago
- Adapter trimmer for Oxford Nanopore reads using ab initio method☆40Updated 3 months ago
- GTDB taxonomy taxdump files with trackable TaxIds☆52Updated 10 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- ☆80Updated last year
- a collection of scripts for organising bacterial genomes by species☆76Updated 3 years ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆58Updated last year
- Split Kmer Analysis☆62Updated 2 years ago
- Kraken output generates a report for each datasets, this script takes these individual output and combines it to one file, where each col…☆22Updated 7 months ago
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆29Updated 5 years ago
- Convert GFF, fastas, annotation table and species name into Genbank.☆14Updated last week
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆40Updated 3 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆58Updated 2 weeks ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆44Updated last month
- Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers☆33Updated last year
- A tool for generating consensus long-read assemblies for bacterial genomes☆106Updated this week
- The SYNY pipeline investigates synteny between species by reconstructing protein clusters from gene pairs.☆40Updated last month
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆27Updated 3 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- ☆41Updated 4 years ago