DeniRibicic / q2ONTLinks
Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2
☆30Updated 5 years ago
Alternatives and similar repositories for q2ONT
Users that are interested in q2ONT are comparing it to the libraries listed below
Sorting:
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 4 years ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆41Updated 4 years ago
- ☆83Updated last year
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆45Updated 2 years ago
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆56Updated 3 years ago
- IS mapping software☆56Updated 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
- Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.☆47Updated 4 months ago
- ☆52Updated last month
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆18Updated 5 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…☆23Updated last year
- Horizontal gene transfer (HGT) identification pipeline☆62Updated 2 years ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆61Updated last year
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆47Updated 3 years ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆55Updated last year
- scripts for estimating bacteria replication rates based on population genome copy number variation☆72Updated 5 years ago
- whole genome MLST analysis☆46Updated last month
- workflows for offline analysis of 16S rRNA Nanopore data☆15Updated 2 years ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆46Updated 5 years ago
- Sorts amplicons from Nanopore sequencing data based on similarity☆38Updated 2 months ago
- DDBJ Fast Annotation and Submission Tool☆81Updated 3 months ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆88Updated 11 months ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆90Updated this week
- Synteny Imager☆63Updated 2 weeks ago
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 5 months ago
- ☆36Updated 3 years ago
- A tool for removing redundant genomes from a set of assemblies☆73Updated last year
- A pipeline for the identification of fungi in public metagenomics datasets☆16Updated 4 years ago
- Tool to estimate genome quality of microbial eukaryotes☆38Updated last week