Discover Edinburgh-Genome-Foundry/CUBA Open Source project

📕 Python library and CSS theme to generate PDF reports from HTML/Pug

491

pdf_reports

✏️ A versatile DNA sequence optimizer

190

DnaChisel

🔥 Python file and zip operations made easy

176

Flametree

🎒 Simple schedule optimization library for Python

147

Taskpacker

🏷️ Python label/sticker PDF generation. HTML templates, built-in barcodes, qr codes, and other goodies

135

blabel

📝 Logs and progress bars manager for Python

135

Proglog

🌎 Analyze and generate reports of web logs (NGINX)

lala

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

DnaCauldron

👾 Generate identicons for DNA sequences with Python

sequenticon

🤖 Python biolab automation library: parsers, reports generators, picklists simulators, and more

Plateo

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

Primavera

📊 Codon usage tables in code-friendly format + Python bindings

codon-usage-tables

💠 Find common blocks and differences between DNA sequences

Geneblocks

Read DNA sequences from colourful Microsoft Word documents

crazydoc

A route planner for DNA assembly

DnaWeaver

🎨 Python library to plot multi-part genetic constructs

Caravagene

🌠 Easily download genomes and build BLAST/Bowtie indexes in Python

genome_collector

🚖 The friendly Computational App Boilerplate. Django + Vue.JS + Redis queues + NginX

CAB

🎺 Plot DNA digestion band patterns with Python

BandWagon

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

BandWitch

➰ Draw genetic elements with HTML & CSS

SBOL-Visual-CSS

Batch domestication of genetic parts with Python

genedom

Sequencing analysis pipeline

Sequeduct

Nextflow

bioprinter

🖨️ Print pictures with living micro-organisms !

An amino acid sequence annotator

Minotaor

🐾 DNA overhang misannealing data for Python

tatapov

🔗 Short overhangs design for DNA assembly

GoldenHinges

✂️ Design compact restriction sites arrays (python utility)

zymp

🔮 Predict DNA assembly clone validity rates - powered by Kappa

kappagate

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

dab

📚 Shared slideshows, courses, etc. from the EGF

egf-shared-documents

🎒 Python library to read, write, edit DNA sequences

easy_dna

❄️ Python API for the JBEI-ICE sample manager

icebreaker

Collection of Python modules and Jupyter notebook examples

Examples

🌔 Pythonic bindings for the Kappa model simulation language

topkappy

A simple Cre, Flp and other site-specific recombination simulator

crecombio

📒 Short opinionated recipes, mostly for us.

HowTo

Data on different commercial offers for gene-sized DNA

genedeals

igem-registry-downloader

Download the full iGEM database of parts

💣 Identify elements impairing success accross group experiments.

saboteurs

Python package for interpreting sequencing data of assembled DNA constructs (plasmids)

Ediacara

DnaWeaver-online

A web app for DNA Weaver

Thin layer on top of pytrello for automating Trello organization-based tasks

trellab

Polymera is a Python package for representing ambiguous sequences written with complement alphabets.

Polymera

OT2Metclo

GeneAlloy

Edinburgh-Genome-Foundry.github.io

📚 The EGF Software Website

Data for the EGF Tatapov package

tatapov_data

egf-codons-website

📚 Sources of the EGF Codons website, written with Vue.js

Overhang

Compendium of overhangs

Plasmid assessment for Golden Gate cloning

Plasmid_assessor