bhattlab / MGEfinderLinks
A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
☆124Updated last year
Alternatives and similar repositories for MGEfinder
Users that are interested in MGEfinder are comparing it to the libraries listed below
Sorting:
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆99Updated 4 months ago
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆76Updated 8 months ago
- Horizontal gene transfer (HGT) identification pipeline☆63Updated 2 years ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆140Updated last week
- A tool for drawing ANI clustermap between all-vs-all microbial genomes☆85Updated 3 months ago
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆48Updated 4 years ago
- Recovery of prokaryotic genomes from shotgun metagenomic sequencing data☆63Updated 4 years ago
- Supporting code for uncultivated gut virus manuscript☆73Updated 2 years ago
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆70Updated 4 years ago
- GenoVi, an automated customizable circular genome visualizer for bacteria and archaea☆96Updated 2 years ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆47Updated 2 years ago
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆77Updated 2 years ago
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆88Updated last year
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆88Updated last year
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆74Updated last year
- HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.☆136Updated last year
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆71Updated 3 months ago
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆146Updated 4 months ago
- DDBJ Fast Annotation and Submission Tool☆82Updated 4 months ago
- A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during…☆74Updated 2 months ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 4 years ago
- A toolbox for comparative genomics.☆104Updated 4 years ago
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies☆140Updated last month
- ☆144Updated last year
- Development version of Easyfig☆100Updated last year
- Binning Virus Genomes from Metagenomes☆66Updated 3 years ago
- Bioinformatics tool to find integrons in bacterial genomes☆81Updated 3 months ago
- DAS Tool☆156Updated last year
- Making whole bacterial genome sequencing data analysis easy☆109Updated 4 months ago
- Find endogenous viral elements in genomes☆16Updated 2 months ago