Plascad is a computationally efficient tool designed for plasmids classification, antibiotic resistance genes (ARGs) annotation and plasmid visualization.
☆52Feb 2, 2021Updated 5 years ago
Alternatives and similar repositories for plascad
Users that are interested in plascad are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆21Apr 20, 2023Updated 3 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50Apr 22, 2026Updated 2 weeks ago
- ☆13Sep 4, 2017Updated 8 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
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆174Apr 16, 2025Updated last year
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Software for prediction of plasmid sequences in metagenomic assemblies☆110Jun 28, 2021Updated 4 years ago
- Bioinformatics tool to find integrons in bacterial genomes☆87May 7, 2025Updated last year
- ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Dat…☆72Mar 16, 2025Updated last year
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆108Dec 5, 2025Updated 5 months ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆126Oct 30, 2023Updated 2 years ago
- Antibiotic resistance genes (ARGs) have accelerated microbial threats to human health during the last decade. Here we determined the risk…☆19Apr 8, 2022Updated 4 years ago
- Gene Absence Presence Identification tool.☆27Mar 28, 2025Updated last year
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆49Apr 20, 2023Updated 3 years ago
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆73Oct 6, 2020Updated 5 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Small utility script to submit genomes to PHASTER for phage detection☆26Oct 21, 2021Updated 4 years ago
- plasmidVerify: plasmid contig verification tool☆15Apr 30, 2020Updated 6 years ago
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆21Mar 18, 2026Updated last month
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Feb 3, 2021Updated 5 years ago
- Phage annotations and predictions. A spae is a prediction or foretelling. We'll foretell you what your phage is doing!☆42Updated this week
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆81Sep 20, 2023Updated 2 years ago
- WtP: Phage identification via nextflow and docker or singularity☆105Mar 19, 2026Updated last month
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆64Apr 30, 2026Updated last week
- Prediction of prophages from bacterial genomes☆83May 1, 2026Updated last week
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- zDB: comparative bacterial genomics made easy☆40Feb 2, 2026Updated 3 months ago
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆13Jun 10, 2021Updated 4 years ago
- Code for de novo discovery of viral families in virome data☆16Jun 20, 2024Updated last year
- ISCompare, an opensource program to identify Differentially Located Insertion Sequences☆14Apr 30, 2026Updated last week
- code repo for mobileOG-db☆46Nov 6, 2025Updated 6 months ago
- Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.☆121Jan 22, 2025Updated last year
- rhierbaps: R implementation of hierBAPS☆36Feb 23, 2026Updated 2 months ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆636Feb 18, 2026Updated 2 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Dec 11, 2020Updated 5 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Mass screening of contigs for antimicrobial and virulence genes☆491Apr 3, 2026Updated last month
- whole genome MLST analysis☆51Mar 27, 2026Updated last month
- geNomad: Identification of mobile genetic elements☆307Mar 29, 2026Updated last month
- Horizontal gene transfer (HGT) identification pipeline☆71May 17, 2023Updated 2 years ago
- Rapid determination of appropriate reference genomes.☆101Jan 22, 2025Updated last year
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆13Mar 12, 2024Updated 2 years ago
- ☆25Apr 20, 2023Updated 3 years ago