GitHub topics: plasmids
bebop/poly
A Go package for engineering organisms.
Language: Go - Size: 11 MB - Last synced at: about 4 hours ago - Pushed at: 9 months ago - Stars: 709 - Forks: 71
gmboowa/rMAP-2.0
This tool provides a ready-to-use WDL-Docker-Cromwell environment for rMAP, a bioinformatics pipeline for analyzing microbial genomic data, Genome assembly & profiling Resistome, Mobilome & Virulome as well Pangenome & MLST typing, Blastn & Phylogenetic analysis. It includes all required tools, enabling reproducible & scalable analysis of NGS data
Language: WDL - Size: 14.8 MB - Last synced at: 9 days ago - Pushed at: 9 days ago - Stars: 1 - Forks: 0
BCCDC-PHL/plasmid-screen
Screen plasmids for carbapenemase resistance genes, and classify using MOB Suite
Language: Python - Size: 104 KB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 1 - Forks: 0
phac-nml/mob-suite
MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
Language: Python - Size: 43.2 MB - Last synced at: 7 days ago - Pushed at: 3 months ago - Stars: 153 - Forks: 33
smaegol/PlasFlow
Software for prediction of plasmid sequences in metagenomic assemblies
Language: Python - Size: 37.7 MB - Last synced at: 8 days ago - Pushed at: about 4 years ago - Stars: 104 - Forks: 28
burstein-lab/burstein-lab.github.io
Official website of the Burstein Lab at Tel Aviv University - computational microbiology using NLP, machine learning, and large language models to study CRISPR-Cas systems, antimicrobial resistance, horizontal gene transfer, and microbial interactions
Language: CSS - Size: 16.2 MB - Last synced at: 25 days ago - Pushed at: 25 days ago - Stars: 0 - Forks: 0
oschwengers/platon
Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.
Language: Python - Size: 37.4 MB - Last synced at: 23 days ago - Pushed at: 6 months ago - Stars: 117 - Forks: 15
oschwengers/bakta
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
Language: Python - Size: 99.4 MB - Last synced at: 26 days ago - Pushed at: 26 days ago - Stars: 532 - Forks: 62
Koeng101/dnadesign
A Go package for designing DNA.
Language: Go - Size: 37.1 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 32 - Forks: 1
moltinginstar/addgene-api
An unofficial API for Addgene, the open-source plasmid repository.
Language: Python - Size: 26.4 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 4 - Forks: 1
yachielab/QUEEN
QUEEN: a framework to generate quinable and efficiently editable nucleotide sequence resources
Language: Python - Size: 33.6 MB - Last synced at: 19 days ago - Pushed at: 2 months ago - Stars: 44 - Forks: 9
Lattice-Automation/synbio
a DNA assembly library
Language: Python - Size: 24.7 MB - Last synced at: 2 days ago - Pushed at: over 1 year ago - Stars: 22 - Forks: 2
pianpianyouche/plascad
Plascad is a computationally efficient tool designed for plasmids classification, antibiotic resistance genes (ARGs) annotation and plasmid visualization.
Language: Python - Size: 10.8 MB - Last synced at: about 2 months ago - Pushed at: over 4 years ago - Stars: 51 - Forks: 13
oschwengers/tadrep
Targeted Detection and Reconstruction of Plasmids
Language: Python - Size: 2.63 MB - Last synced at: about 1 month ago - Pushed at: about 1 year ago - Stars: 20 - Forks: 1
MetabolicEngineeringGroupCBMA/YeastPathwayKit
Yeast pathway kit promoter and terminator vectors and other related public information. Do not put secret information here.
Language: Jupyter Notebook - Size: 10.9 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0
th0mr/plasmidcanvas
A simple python plasmid map creator
Language: Python - Size: 5.2 MB - Last synced at: 12 months ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 1
tiagofilipe12/pATLAS
Plasmid Atlas - A web interface to browse for plasmids and their associated genes. Visit us at:
Language: JavaScript - Size: 62.3 MB - Last synced at: 4 days ago - Pushed at: over 6 years ago - Stars: 21 - Forks: 8
the-alquemist/GMI-PAN
Bacterial plasmid annotation pipeline
Language: Python - Size: 5.16 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
ssi-dk/BPS_FBI_scripts_Clostyper
Tool to find mge (phages, plasmids, and transposons) in cdiff. Scripts that allow Clostyper to be run in slurm.
Language: Python - Size: 15.9 MB - Last synced at: 5 months ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0
althonos/moclo
Modular cloning simulation with the MoClo framework in Python
Language: Python - Size: 1.8 MB - Last synced at: 5 days ago - Pushed at: about 3 years ago - Stars: 12 - Forks: 2
jjti/repp
repository-based plasmid design
Language: Go - Size: 338 MB - Last synced at: about 1 year ago - Pushed at: almost 3 years ago - Stars: 2 - Forks: 5
NorwegianVeterinaryInstitute/Ellipsis
Plasmid assembly, gene identification and annotation pipeline
Language: Nextflow - Size: 1.71 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 3 - Forks: 3
lisavader/plasmidEC
An ensemble of plasmid classification tools
Language: Shell - Size: 11.7 MB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 2
haradama/pHash
Software to identify known plasmid sequence from metagenomic assembly using Minhash
Language: Go - Size: 15.9 MB - Last synced at: about 2 months ago - Pushed at: over 6 years ago - Stars: 3 - Forks: 0
BBQuercus/master-thesis
Master thesis in molecular biology at the University of Basel.
Language: Jupyter Notebook - Size: 22.9 MB - Last synced at: over 2 years ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0
photocyte/auto_clone
A Python based server for making Gibson cloning a little faster
Language: Python - Size: 417 KB - Last synced at: over 2 years ago - Pushed at: over 6 years ago - Stars: 1 - Forks: 0
haradama/PlasmidPicker
Software to identify plasmid sequence data from metagenome using logistic regression and Minhash
Language: Python - Size: 133 MB - Last synced at: 4 months ago - Pushed at: over 6 years ago - Stars: 6 - Forks: 2
tiagofilipe12/PlasmidCoverage Fork of jacarrico/PlasmidCoverage
Script to obtain plasmid id from WGS data using bowtie2 to map
Language: Python - Size: 189 KB - Last synced at: 24 days ago - Pushed at: almost 7 years ago - Stars: 1 - Forks: 1