Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

a JavaScript DNA, RNA, and protein sequence viewer

DEPRECATED - Teselagen's Open Source Vector/Plasmid Editor Component

MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies

:pill: :pill: :pill: :pill: :pill: Lots of resources on the world of Biohacking, Genetic Editing, Biology, Bacteria, DNA, CRISPR, Cas9, Plasmids, Antibiotics, PCR, and moooreeeee... :pill: :pill: :pill: :pill: :pill: IN CELL WE TRUST!!! :pill: :pill: :pill: :pill: :pill:

Webserver and command line tool for annotating engineered plasmids

Plasmid and primer design software

DNA Plasmid Visualization Component using AngularJS

Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

Software for prediction of plasmid sequences in metagenomic assemblies

Server-side minigame development library based on Fabric.

Creating plasmid maps inside ggplot.

Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates

Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biotoul.fr/)

This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye Rozov, Aya Brown Kav, David Bogumil, Naama Shterzer, Eran Halperin, Itzhak Mizrahi, and Ron Shamir

web app to clone, edit in-place, and republish any web site

Plascad is a computationally efficient tool designed for plasmids classification, antibiotic resistance genes (ARGs) annotation and plasmid visualization.

Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf

Plasmid analysis using rearrangement distances

An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.

code repo for mobileOG-db

Code for DNA plasmid editing.

A tool for identifying phages and plasmids from metagenomic fragments using deep learning

PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identification.

Predict plasmids from uncorrected long read data

PLSDB pipeline to collect bacterial plasmids from NCBI

PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture

The CGView Comparison Tool (CCT) is a package for visually comparing bacterial, plasmid, chloroplast, and mitochondrial sequences.

SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-021-01068-z

A k-mer based program for the identification of known plasmids from whole-genome sequencing reads