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Synthetic Biology Python Packages

Python packages with the GitHub topic synthetic-biology. Sorted by relevance, with stars and monthly downloads.
Edinburgh-Genome-Foundry
dnachisel

:pencil2: A versatile DNA sequence optimizer

64K 272 51
Edinburgh-Genome-Foundry
dna-features-viewer

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

34K 689 105
Edinburgh-Genome-Foundry
snapgene-reader

👓 Python library to parse Snapgene *.dna files to dict or biopython seqrecord.

18K 31 8
Edinburgh-Genome-Foundry
sequenticon

:space_invader: Generate identicons for DNA sequences with Python

6K 38 5
adibvafa
codontransformer

CodonTransformer (2M+ Downloads); The tool for codon optimization, optimizing DNA for protein expression

5K 211 31
barricklab
ostir

Open Source Transcription Initiation Rates

2K 33 9
Edinburgh-Genome-Foundry
dnacauldron

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

1K 66 10
Merck
deepbgc

BGC Detection and Classification Using Deep Learning

1K 158 29
georgeoshardo
symbac

A package for generating synthetic images of bacteria in phase contrast or fluorescence. Used for creating training data for machine learning segmentation and tracking algorithms.

916 22 11
BjornFJohansson
ypkpathway

Automatic pathway assembly with the YeastPathwayKit

862 2 1
Edinburgh-Genome-Foundry
dna-features-viewer-lite

Plot features from DNA sequences (e.g. Genbank) with Python

688 689 105
Edinburgh-Genome-Foundry
geneblocks

:diamond_shape_with_a_dot_inside: Find common blocks and differences between DNA sequences

642 44 3
jvrana
dasi

A Python molecular biology CAD tool with a dead-simple user interface

618 13 1
hiyama341
teemi

teemi: A Python package for reproducible and FAIR microbial strain construction. Simulate the entire dbtl-cycle, generate genetic parts, design libraries, and track samples. Open-source Python platform for workflow flexibility and automated tasks, accelerating metabolic engineering. Try teemi with our Google Colab notebooks!

546 44 3
Edinburgh-Genome-Foundry
bandwitch

Enzyme selection for DNA verification and identification.

521 15 0
Edinburgh-Genome-Foundry
bandwagon

Simulate DNA band patterns for gel migration experiments.

510 20 3
Edinburgh-Genome-Foundry
plateo

Read/write microplate and picklist data for lab automation

505 46 8
koeng101
dnadesign

Python bindings for dnadesign

481 38 1
Edinburgh-Genome-Foundry
dnaweaver

Make ordering and assembly plans for DNA sequences

475 37 9
brsynth
retropath2-wrapper

'python wrapper to run retropath2.0 knime workflow'

417 9 1
Edinburgh-Genome-Foundry
caravagene

Plot multi-part genetic constructs.

376 26 2
Edinburgh-Genome-Foundry
tatapov

:paw_prints: DNA overhang misannealing data for Python

372 13 1
Edinburgh-Genome-Foundry
crazydoc

Read DNA sequences from colourful Microsoft Word documents

368 34 4
Edinburgh-Genome-Foundry
genedom

Batch domestication of genetic parts with Python

346 16 1
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