richardmleggett / MARTi
Metagenomic Analysis in Real Time
☆24Updated 3 weeks ago
Alternatives and similar repositories for MARTi:
Users that are interested in MARTi are comparing it to the libraries listed below
- Predict plasmids from uncorrected long read data☆39Updated 5 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆27Updated last year
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated last year
- reference-based long read assemblies of bacterial genomes☆48Updated 3 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆34Updated this week
- Recombination-free trees☆58Updated last month
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆48Updated last year
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago
- Split Kmer Analysis☆63Updated 2 years ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 2 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 2 months ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- BEAV: Bacterial Element Annotation reVamped☆64Updated 5 months ago
- IS mapping software☆53Updated 3 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last month
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆45Updated 3 weeks ago
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated 2 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Gene-flank analysis tool☆27Updated 4 months ago
- Order and orientation of complete bacterial genomes☆27Updated last year
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆24Updated 3 weeks ago
- Small utility script to submit genomes to PHASTER for phage detection☆24Updated 3 years ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 9 months ago
- A tool to identify and annotate homoplasies on a phylogeny and sequence alignment☆20Updated 3 years ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆59Updated last week
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆27Updated 6 months ago
- ☆36Updated 3 years ago
- whole genome MLST analysis☆41Updated 3 weeks ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆62Updated 2 years ago