PlasCAT: Plasmid Cloud Assembly Tool

Samuel Peccoud; Casey-Tyler Berezin; Sarah I Hernandez; Jean Peccoud

doi:10.1093/bioinformatics/btae299

PlasCAT: Plasmid Cloud Assembly Tool

Bioinformatics. 2024 May 2;40(5):btae299. doi: 10.1093/bioinformatics/btae299.

Authors

Samuel Peccoud¹, Casey-Tyler Berezin², Sarah I Hernandez², Jean Peccoud^{1

2}

Affiliations

¹ GenoFAB, Inc., Fort Collins, CO 80528, United States.
² Department of Chemical and Biological Engineering, Colorado State University, Fort Collins, CO 80523, United States.

Abstract

Summary: PlasCAT (Plasmid Cloud Assembly Tool) is an easy-to-use cloud-based bioinformatics tool that enables de novo plasmid sequence assembly from raw sequencing data. Nontechnical users can now assemble sequences from long reads and short reads without ever touching a line of code. PlasCAT uses high-performance computing servers to reduce run times on assemblies and deliver results faster.

Availability and implementation: PlasCAT is freely available on the web at https://sequencing.genofab.com. The assembly pipeline source code and server code are available for download at https://bitbucket.org/genofabinc/workspace/projects/PLASCAT. Click the Cancel button to access the source code without authenticating. Web servers implemented in React.js and Python, with all major browsers supported.

Publication types

Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

Cloud Computing
Computational Biology / methods
Internet
Plasmids* / genetics
Sequence Analysis, DNA / methods
Software*

Abstract

Publication types

MeSH terms

Grants and funding