plasmid

a JavaScript DNA, RNA, and protein sequence viewer

Terminal-based plasmid map viewer, sequence editor, and cloning/mutagenesis workbench in pure Python

Software for prediction of plasmid sequences in metagenomic assemblies

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

code repo for mobileOG-db

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

An AI-native molecular biology workbench for Claude Science: Claude opens sequence files and prepares analyses on request; you annotate, align, and review them in an interactive workspace.

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

repository-based plasmid design

A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes

Finding regions of similarity between plasmids

DEPRECATED: Use Cenote-Taker 3 instead

A method for next-day high-throughput full plasmid sequencing from colonies

A library for creating plasmid feature maps with zero external dependencies.

Plasmid Copy Number Estimator is a tool to estimate the copy numbers of plasmids detected in an assembled genome

Automatically plan the most optimal expression vector using restriction enzymes.

repository-based plasmid design