xiezhq / ISEScanLinks
A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
☆101Updated last month
Alternatives and similar repositories for ISEScan
Users that are interested in ISEScan are comparing it to the libraries listed below
Sorting:
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆146Updated last week
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆72Updated 5 years ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆207Updated this week
- Reorients assembled microbial sequences☆131Updated 4 months ago
- Find endogenous viral elements in genomes☆21Updated 3 months ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆124Updated 2 years ago
- DDBJ Fast Annotation and Submission Tool☆83Updated 4 months ago
- Bioinformatics tool to find integrons in bacterial genomes☆82Updated 8 months ago
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆77Updated 8 months ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆75Updated last year
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆49Updated 2 years ago
- A toolbox for comparative genomics.☆108Updated 4 years ago
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆52Updated 4 years ago
- Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …☆33Updated 2 years ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆90Updated last month
- ☆153Updated last year
- HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.☆142Updated 2 years ago
- GenoVi, an automated customizable circular genome visualizer for bacteria and archaea☆101Updated 2 years ago
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆85Updated last year
- Horizontal gene transfer (HGT) identification pipeline☆65Updated 2 years ago
- Foreign Contamination Screening caller scripts and documentation☆155Updated 10 months ago
- Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.☆48Updated 9 months ago
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆18Updated 5 years ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆231Updated 3 months ago
- fast phage annotation program☆188Updated last week
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆117Updated last year
- 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…☆148Updated 3 months ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆83Updated 2 weeks ago
- A tool for drawing ANI clustermap between all-vs-all microbial genomes☆89Updated 8 months ago
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆80Updated 2 years ago