MDU-PHL / abritamrLinks
A pipeline for running AMRfinderPlus and collating results into functional classes
☆78Updated 9 months ago
Alternatives and similar repositories for abritamr
Users that are interested in abritamr are comparing it to the libraries listed below
Sorting:
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 3 months ago
- Reorients assembled microbial sequences☆120Updated 2 months ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆127Updated 3 weeks ago
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆68Updated 4 years ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆137Updated this week
- a collection of scripts for organising bacterial genomes by species☆76Updated 3 years ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆64Updated 2 weeks ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆69Updated 11 months ago
- A tool for drawing ANI clustermap between all-vs-all microbial genomes☆81Updated last month
- A tool for removing redundant genomes from a set of assemblies☆71Updated last year
- Sorts amplicons from Nanopore sequencing data based on similarity☆38Updated last week
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆43Updated 2 years ago
- Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …☆32Updated last year
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆18Updated 5 years ago
- DDBJ Fast Annotation and Submission Tool☆79Updated last month
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆121Updated last year
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆48Updated 3 weeks ago
- ☆82Updated last year
- A toolbox for comparative genomics.☆103Updated 4 years ago
- IS mapping software☆54Updated 3 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆49Updated last year
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆58Updated last month
- Bioinformatics tool to find integrons in bacterial genomes☆75Updated 3 weeks ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆40Updated 3 years ago
- Find endogenous viral elements in genomes☆13Updated 4 months ago
- Detection of pseudogene candidates in bacterial and archaeal genomes.☆49Updated last year
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆66Updated last month
- SKESA assembler☆119Updated 7 months ago
- Horizontal gene transfer (HGT) identification pipeline☆58Updated 2 years ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆28Updated last month