transposable element typing pipeline
☆19Mar 8, 2024Updated 2 years ago
Alternatives and similar repositories for TETyper
Users that are interested in TETyper are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆38Apr 14, 2022Updated 4 years ago
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆13Feb 9, 2025Updated last year
- Fast pairwise transmission inference from single genome and/or metagenomic data☆38Jul 18, 2026Updated last week
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Aug 8, 2022Updated 3 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- A set of scripts for calculating pairwise SNP distance☆45Feb 19, 2026Updated 5 months ago
- Finding regions of similarity between plasmids☆17Jul 15, 2026Updated last week
- ☆16Jun 21, 2023Updated 3 years ago
- Uses cDBG to count unitigs in bacterial populations☆18Feb 15, 2023Updated 3 years ago
- Meta-pipeline to identify transposable element insertions using next generation sequencing data☆107May 31, 2025Updated last year
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆42Feb 9, 2022Updated 4 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Feb 3, 2021Updated 5 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆16Jun 26, 2018Updated 8 years ago
- in silico plasmid extraction☆13Sep 18, 2017Updated 8 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆21Mar 18, 2026Updated 4 months ago
- Targeted Detection and Reconstruction of Plasmids☆22May 7, 2024Updated 2 years ago
- A nextflow pipeline for performing bacterial RNA-Seq data analysis.☆13Updated this week
- Take a list of Pacbio files (.fofn) and creates a spreadsheet for data submission to the sequuence read archive (SRA)☆12Feb 28, 2016Updated 10 years ago
- Assembling the cause of phenotypes and genotypes from NGS data☆29Jun 11, 2020Updated 6 years ago
- Visualisation application for Klebsiella genotypes generated by Kleborate.☆10Mar 10, 2026Updated 4 months ago
- AMR/VF LGT focused bacterial genomics analysis workflow☆28Feb 19, 2026Updated 5 months ago
- 🧮 🔢 Generate multi-sample k-mer count matrix from WGS☆11Jan 17, 2026Updated 6 months ago
- ☆13Sep 4, 2017Updated 8 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Plot bacterial gene maps and genome comparison plots from command line with genoPlotR and GenomeDiagram☆13Mar 10, 2026Updated 4 months ago
- ISCompare, an opensource program to identify Differentially Located Insertion Sequences☆14Apr 30, 2026Updated 2 months ago
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆13Mar 12, 2024Updated 2 years ago
- Generate interactive dotplot from mummer4 output using plotly☆27Feb 29, 2020Updated 6 years ago
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆13Jun 10, 2021Updated 5 years ago
- Pangenome analysis of eukaryotes.☆21Sep 21, 2020Updated 5 years ago
- ☆26Apr 20, 2023Updated 3 years ago
- Population analysis PIPEline 🛠🧬☆25Mar 2, 2026Updated 4 months ago
- ☆10Apr 16, 2025Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- 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…☆157Oct 2, 2025Updated 9 months ago
- Genotyping of segregating mobile elements insertions☆19Jul 29, 2021Updated 4 years ago
- Domain based annotation of transposable elements☆23Jul 21, 2026Updated last week
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13May 15, 2018Updated 8 years ago
- Analysing the genomic context of mobile genes☆11Jul 21, 2025Updated last year
- ☆144Updated this week
- Symmetric DUST for finding low-complexity regions in DNA sequences☆46Jul 24, 2025Updated last year