Discover Edinburgh-Genome-Foundry/Examples Open Source project

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Edinburgh-Genome-Foundry

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Collection of Python modules and Jupyter notebook examples

DnaFeaturesViewer

👁️ Python library to plot DNA sequence features (e.g. from Genbank files)

Python

491

pdf_reports

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

Python

190

DnaChisel

✏️ A versatile DNA sequence optimizer

Python

176

Flametree

🔥 Python file and zip operations made easy

Python

147

Taskpacker

🎒 Simple schedule optimization library for Python

Python

135

blabel

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

Python

135

Proglog

📝 Logs and progress bars manager for Python

Python

lala

🌎 Analyze and generate reports of web logs (NGINX)

Python

DnaCauldron

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

Python

sequenticon

👾 Generate identicons for DNA sequences with Python

Python

Plateo

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

Python

Primavera

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

Python

codon-usage-tables

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

Python

Geneblocks

💠 Find common blocks and differences between DNA sequences

Python

crazydoc

Read DNA sequences from colourful Microsoft Word documents

Python

DnaWeaver

A route planner for DNA assembly

Python

Caravagene

🎨 Python library to plot multi-part genetic constructs

Python

genome_collector

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

Python

CAB

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

Vue

CUBA

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

Vue

BandWagon

🎺 Plot DNA digestion band patterns with Python

Python

BandWitch

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

Python

SBOL-Visual-CSS

➰ Draw genetic elements with HTML & CSS

HTML

genedom

Batch domestication of genetic parts with Python

Python

Sequeduct

Sequencing analysis pipeline

Nextflow

bioprinter

🖨️ Print pictures with living micro-organisms !

Python

Minotaor

An amino acid sequence annotator

Python

tatapov

🐾 DNA overhang misannealing data for Python

Python

GoldenHinges

🔗 Short overhangs design for DNA assembly

Python

zymp

✂️ Design compact restriction sites arrays (python utility)

Python

kappagate

🔮 Predict DNA assembly clone validity rates - powered by Kappa

Python

dab

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

Vue

egf-shared-documents

📚 Shared slideshows, courses, etc. from the EGF

HTML

easy_dna

🎒 Python library to read, write, edit DNA sequences

Python

icebreaker

❄️ Python API for the JBEI-ICE sample manager

Python

topkappy

🌔 Pythonic bindings for the Kappa model simulation language

Python

crecombio

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

Python

HowTo

📒 Short opinionated recipes, mostly for us.

Python

genedeals

Data on different commercial offers for gene-sized DNA

igem-registry-downloader

Download the full iGEM database of parts

Python

saboteurs

💣 Identify elements impairing success accross group experiments.

Python

Ediacara

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

Python

DnaWeaver-online

A web app for DNA Weaver

Vue

trellab

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

Python

Polymera

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

OT2Metclo

GeneAlloy

Edinburgh-Genome-Foundry.github.io

📚 The EGF Software Website

HTML

tatapov_data

Data for the EGF Tatapov package

egf-codons-website

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

Vue

Overhang

Compendium of overhangs

Python

Plasmid_assessor

Plasmid assessment for Golden Gate cloning

Python

ImagesAnnotator

Simple web app to annotate images by hand - built with Vue.js

JavaScript

EGF_Docker_Jupyter

Docker Jupyter images with (almost) all EGF packages

Dockerfile

Edinburgh-Genome-Foundry/Examples

Edinburgh-Genome-Foundry

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