bhattlab / latheLinks
A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
☆69Updated 4 years ago
Alternatives and similar repositories for lathe
Users that are interested in lathe are comparing it to the libraries listed below
Sorting:
- GTDB taxonomy taxdump files with trackable TaxIds☆55Updated 6 months ago
- A tool for removing redundant genomes from a set of assemblies☆77Updated 2 months ago
- Microbiome classification pipeline☆65Updated 6 months ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆41Updated 4 years ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆50Updated 2 months ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆46Updated 2 years ago
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆18Updated 5 years ago
- A scalable bacterial genome assembly, annotation and analysis pipeline☆75Updated last year
- a collection of scripts for organising bacterial genomes by species☆81Updated 3 years ago
- nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…☆70Updated 3 years ago
- Prediction of prophages from bacterial genomes☆82Updated 5 months ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 5 years ago
- ☆84Updated 2 years ago
- tools for assessing the accuracy of genome assemblies☆35Updated last year
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆62Updated 2 years ago
- A toolkit for prokaryotic comparative genomics☆51Updated last month
- Improvement of metagenome-assembled genomes☆54Updated 5 years ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆81Updated last month
- Adapter trimmer for Oxford Nanopore reads using ab initio method☆54Updated last year
- Split Kmer Analysis☆65Updated 3 years ago
- IS mapping software☆57Updated 3 years ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆49Updated 2 years ago
- ☆62Updated last year
- post processing of bacterial pangenome gene presence/absence matrices☆63Updated 8 months ago
- FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…☆67Updated 8 months ago
- ☆59Updated last year
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆59Updated last year
- Estimate metagenomic coverage and sequence diversity☆56Updated last year
- Long-read metagenomic analysis☆106Updated 2 years ago
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆29Updated 5 years ago