avivace/dna-recombination

Computer Science B.Sc thesis paper and final stage experience. Approaching a Computational Biology Problem with integer linear programming tools.

Language: TeX - Size: 8.07 MB - Last synced: 15 days ago - Pushed: over 3 years ago - Stars: 3 - Forks: 0

Lattice-Automation/primers

A PCR primer tool for DNA assembly flows

Language: Python - Size: 70.3 KB - Last synced: 23 days ago - Pushed: 23 days ago - Stars: 22 - Forks: 6

Edinburgh-Genome-Foundry/Caravagene

🎨 Python library to plot multi-part genetic constructs

Language: Python - Size: 7.48 MB - Last synced: 3 days ago - Pushed: 10 months ago - Stars: 24 - Forks: 2

Edinburgh-Genome-Foundry/DnaCauldron

:alembic: Simple cloning simulator (Golden Gate etc.) for single and combinatorial assemblies

Language: Python - Size: 3.41 MB - Last synced: 20 days ago - Pushed: 10 months ago - Stars: 49 - Forks: 11

Edinburgh-Genome-Foundry/DnaWeaver

A route planner for DNA assembly

Language: Python - Size: 3.98 MB - Last synced: 22 days ago - Pushed: 8 months ago - Stars: 28 - Forks: 9

Edinburgh-Genome-Foundry/dab

:point_right: EGF Design and Build, the Foundry's DNA design ordering portal

Language: Vue - Size: 1.55 MB - Last synced: about 2 months ago - Pushed: over 5 years ago - Stars: 8 - Forks: 0

JBEI/dnada

DNAda is a web application that integrates the J5 DNA assembly software with robotic liquid handlers

Language: Python - Size: 1.4 MB - Last synced: 20 days ago - Pushed: 9 months ago - Stars: 7 - Forks: 1

sblabkribb/Automated-protocol

Automated synthetic biology protocols with ot2

Language: Python - Size: 9.45 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 0 - Forks: 1

Edinburgh-Genome-Foundry/egf-shared-documents

:books: Shared slideshows, courses, etc. from the EGF

Language: HTML - Size: 136 MB - Last synced: about 2 months ago - Pushed: about 4 years ago - Stars: 8 - Forks: 2

Edinburgh-Genome-Foundry/CUBA

🏖️ The EGF Collection of Useful Bio Apps - Web demos of EGF software

Language: Vue - Size: 16.3 MB - Last synced: about 2 months ago - Pushed: over 1 year ago - Stars: 19 - Forks: 3

Edinburgh-Genome-Foundry/kappagate

:crystal_ball: Predict DNA assembly clone validity rates - powered by Kappa

Language: Python - Size: 257 KB - Last synced: 20 days ago - Pushed: almost 4 years ago - Stars: 9 - Forks: 0

Edinburgh-Genome-Foundry/BandWitch

💫 Computer-aided DNA assembly validation and identification from restriction digests.

Language: Python - Size: 10.3 MB - Last synced: 17 days ago - Pushed: almost 2 years ago - Stars: 16 - Forks: 0

bioinfologics/Pseudoseq.jl

Fake genomes, fake sequencing, real insights.

Language: Julia - Size: 7.25 MB - Last synced: about 21 hours ago - Pushed: over 2 years ago - Stars: 13 - Forks: 3

czmilanna/nanoforms

The repository contains the source code of the NanoForms server (Czmil et al. NanoForms: an integrated server for processing, analysis and assembly of raw sequencing data of microbial genomes, from Oxford Nanopore technology. PeerJ, 2022). It is meant to be the source for standalone server installation. https://doi.org/10.7717/peerj.13056

Language: JavaScript - Size: 1.79 MB - Last synced: 6 months ago - Pushed: about 1 year ago - Stars: 7 - Forks: 2

Edinburgh-Genome-Foundry/tatapov

:paw_prints: DNA overhang misannealing data for Python

Language: Python - Size: 50.8 KB - Last synced: 26 days ago - Pushed: about 2 years ago - Stars: 12 - Forks: 1

Edinburgh-Genome-Foundry/genedom

Batch domestication of genetic parts with Python

Language: Python - Size: 2.47 MB - Last synced: 19 days ago - Pushed: about 2 years ago - Stars: 14 - Forks: 1

Edinburgh-Genome-Foundry/zymp

:scissors: Design compact restriction sites arrays (python utility)

Language: Python - Size: 138 KB - Last synced: 21 days ago - Pushed: about 2 years ago - Stars: 9 - Forks: 0

Edinburgh-Genome-Foundry/saboteurs

:bomb: Identify elements impairing success accross group experiments.

Language: Python - Size: 7.96 MB - Last synced: 30 days ago - Pushed: about 2 years ago - Stars: 4 - Forks: 0

Edinburgh-Genome-Foundry/Primavera

:cherry_blossom: Python library for primer-based verification of DNA assemblies: primer selection, data analyis, etc.

Language: Python - Size: 2.57 MB - Last synced: 19 days ago - Pushed: about 2 years ago - Stars: 33 - Forks: 4

Edinburgh-Genome-Foundry/GoldenHinges

:link: Short overhangs design for DNA assembly

Language: Python - Size: 7 MB - Last synced: about 2 months ago - Pushed: almost 2 years ago - Stars: 11 - Forks: 0

Edinburgh-Genome-Foundry/igem-registry-downloader

Download the full iGEM database of parts

Language: Python - Size: 5.86 KB - Last synced: about 2 months ago - Pushed: over 7 years ago - Stars: 4 - Forks: 0

Lattice-Automation/synbio

a DNA assembly library

Language: Python - Size: 24.7 MB - Last synced: 2 months ago - Pushed: 5 months ago - Stars: 15 - Forks: 3

TC-Hewitt/Misc_NGS

various tools that help with deep sequencing analysis

Language: Python - Size: 54.7 KB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 0 - Forks: 0

hmjeon/TALOS

Three-dimensional, Algorithmically-generated Library of DNA Origami Shapes

Language: Fortran - Size: 48.1 MB - Last synced: 7 months ago - Pushed: over 5 years ago - Stars: 1 - Forks: 4

Meristembio/Weaver

Open source web app for DNA design and management

Language: JavaScript - Size: 18.2 MB - Last synced: 9 months ago - Pushed: 9 months ago - Stars: 1 - Forks: 0

sghignone/canu

openjdk:8 based release of CANU, a PacBio assembler

Language: Singularity - Size: 5.86 KB - Last synced: 9 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

intbio-ncl/BiomationScripterLib

A Python library to assist with scripting bio-automation protocols

Language: Python - Size: 3.1 MB - Last synced: 9 months ago - Pushed: 9 months ago - Stars: 3 - Forks: 0

mfileman/Circular-String

This was a project for my bioinformatics class. We studied the circular string problem and its application to bioinformatics and sequence generation / reconstruction. This project solves the circular string problem taking in an integer k, by creating a DeBruijn graph and generating a Euler cycle from it (the edges corresponding to all possible binary k-mers).

Language: Swift - Size: 2.93 KB - Last synced: 10 months ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

pablocarderam/genetargeter

Creates a construct developed by the Niles Lab at MIT, designed to deliver a 3' UTR post-transcriptional regulatory element payload to a specific given gene in Plasmodium falciparum.

Language: Python - Size: 226 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

jvrana/pyblast 📦

BLAST wrapper for python that handles circular sequences

Language: Python - Size: 137 MB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

FaresHerhar/py-bofaa

DNA fragments Assembly using multi-objective meta-heuristics.

Language: Python - Size: 252 KB - Last synced: 10 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0

hmjeon/METIS-pub

Designer three layered wireframe DNA origami

Language: Fortran - Size: 6.46 MB - Last synced: 11 months ago - Pushed: about 5 years ago - Stars: 2 - Forks: 0

mmontonerin/Scripts

Scripts and pipelines by Merce Montoliu-Nerin

Language: Perl - Size: 9.77 KB - Last synced: 11 months ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

hmjeon/PERDIX

Programmed Eulerian Routing for DNA Design using X-overs

Language: Fortran - Size: 73.3 MB - Last synced: 7 months ago - Pushed: over 5 years ago - Stars: 4 - Forks: 4

hmjeon/DAEDALUS2-pub

Language: Fortran - Size: 619 KB - Last synced: 11 months ago - Pushed: about 5 years ago - Stars: 1 - Forks: 2

NavpreetDevpuri/DNAc

DNAc is a programming language for DNAs.

Size: 37.1 KB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 1 - Forks: 0

LasVegasCoder/Data-Science

Data Science Tools, Libraries, Classes and Functions

Language: Python - Size: 27.3 KB - Last synced: about 1 year ago - Pushed: about 4 years ago - Stars: 2 - Forks: 2

Edinburgh-Genome-Foundry/_We_Are_Hiring_

:wave: No open positions at the moment but don't hesitate to get in touch

Size: 16.6 KB - Last synced: about 1 year ago - Pushed: over 4 years ago - Stars: 9 - Forks: 0

ishanshukla97/extras

Implementation of random algorithms

Language: Jupyter Notebook - Size: 5.86 KB - Last synced: about 1 year ago - Pushed: about 5 years ago - Stars: 0 - Forks: 0

Essux/DNA-Assembler

Online de novo DNA assembly

Language: Python - Size: 7.66 MB - Last synced: about 1 year ago - Pushed: about 7 years ago - Stars: 0 - Forks: 0