Projects in Awesome Lists tagged with biopython
A curated list of projects in awesome lists tagged with biopython .
https://github.com/biopython/biopython
Official git repository for Biopython (originally converted from CVS)
bioinformatics biopython dna genomics phylogenetics protein protein-structure python sequence-alignment
Last synced: 13 May 2025
https://github.com/plotly/dash-cytoscape
Interactive network visualization in Python and Dash, powered by Cytoscape.js
bioinformatics biopython computational-biology cytoscape cytoscapejs dash data-science graph-theory network-graph network-visualization plotly plotly-dash
Last synced: 20 Oct 2025
https://github.com/ponnhide/pyCircos
python Circos
biopython circos circos-plot matplotlib phylogenetic-trees python visualization
Last synced: 01 May 2025
https://github.com/modernatx/seqlike
Unified biological sequence manipulation in Python
biological-sequences biopython machine-learning sequence
Last synced: 21 Oct 2025
https://github.com/pydna-group/pydna
Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.
anaconda assembly-strategies bioinformatics biology biopython cloning-strategies dna fasta gel gel-electrophoresis gel-simulation genbank gibson-assembly jupyter jupyter-notebook jupyter-notebooks pydna python simulation
Last synced: 06 Feb 2026
https://github.com/zsailer/phylopandas
Pandas DataFrames for phylogenetics
biopython pandas phylogenetics python
Last synced: 25 Sep 2025
https://github.com/moshi4/phytreeviz
Simple phylogenetic tree visualization python package for phylogenetic analysis
bioinformatics biopython matplotlib phylogenetic-trees python visualization
Last synced: 17 Mar 2025
https://github.com/althonos/pyorthoani
A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
average-nucleotide-identity bioinformatics biopython orthoani python python-module
Last synced: 31 Aug 2025
https://github.com/moshi4/gbkviz
Easy-to-use web application for visualization and comparison of genomes in Genbank file
bioinformatics biopython comparative-genomics genbank genomics genomics-visualization microbial-genomics python streamlit visualization webapp
Last synced: 01 Oct 2025
https://github.com/widdowquinn/2018-03-06-ibioic
Teaching materials for 6-7th March 2018 delivery of introductory bioinformatics training course for IBioIC.
bioinformatics biopython blast jupyter-notebook python teaching teaching-materials uniprot
Last synced: 08 Oct 2025
https://github.com/sevdanurgenc/bioinformatics-with-biopython-lecture-notes
This repo contains Bioinformatics lecture notes using Biopython.
bioinformatics bioinformatics-analysis biopython biopython-library
Last synced: 24 Jul 2025
https://github.com/biosustain/goodbye-genbank
A Python package for Biopython that gives feature annotations from GenBank records a new and better life
biopython genbank genomics gff3 sequence-ontology
Last synced: 12 Apr 2025
https://github.com/vinisalazar/bioprov
A provenance library for bioinformatics workflows 🧬 🔀 📝
biological-data biopython prov provenance python w3c-prov
Last synced: 25 Oct 2025
https://github.com/nalomran/pubmed2doc
Write PubMed search results with two display options (citation or listview) to PDF or Word
bioinformatics biopython docx fpdf pubmed pubmed-parser python3
Last synced: 10 Apr 2025
https://github.com/althonos/moclo
Modular cloning simulation with the MoClo framework in Python
bioinformatics biopython moclo modular-cloning plasmids system-biology
Last synced: 07 Sep 2025
https://github.com/kvdomingo/primerdriver
PrimerDriver - Automated design of mutagenic PCR primers
biopython cli command-line mutagenic-pcr-primers polymerase-chain-reaction primer-design python react site-directed-mutagenesis web-application
Last synced: 20 Apr 2025
https://github.com/shgopher/pythonfamily
python 知识体系，包括Python基础，Python AI， Python 爬虫，Python 脚本，Python 数据分析
beautifulsoup biopython biosppy django fastapi flask matplotlib numpy pandas pytest python3 pytorch robotframework scipy scrapy tensorflow
Last synced: 23 Oct 2025
https://github.com/cgoliver/rna-popgen-notebook
Jupyter notebook for RNA evolutionary algorithm and subsequent population genetics and BioPython tools.
biopython jupyter-notebook population-genetics rna rna-evolutionary-algorithm
Last synced: 28 Jul 2025
https://github.com/dillondaudert/proteindatasets
Creating and manipulating various protein sequence-structure datasets using Python, Julia, and other tools.
bioinformatics biopython blast dataset dssp fasta julia jupyter jupyter-notebook pandas protein psiblast python3 secondary structure tensorflow uniref50
Last synced: 10 Apr 2025
https://github.com/okerew/biobridge
Biobridge is a Python library for simulating biological processes and systems also analyzing them, visualising them, and interacting with them.
analysis biology biopython bridge c cpu database learning library linux machine macos python realtime simulation unix windows
Last synced: 10 Oct 2025
https://github.com/therook/multiplexedplasmidbuilder
To combine and modify genbank files to construct multiplexed CRISPR plasmids.
biohacking biology biopython crispr python
Last synced: 26 Feb 2025
https://github.com/orangesi/pykits
simple python script for bioinformatics
bioinformatics-scripts biopython fasta fire-python pandas-python python3
Last synced: 28 Feb 2025
https://github.com/zsailer/scipy-2018
"Resurrecting ancient proteins in Python" (SciPy 2018 talk by Zach Sailer)
biopython dendropy pandas phylogenetics scipy2018 vega
Last synced: 08 Apr 2025
https://github.com/abdelhak-zaaim/bioblastautomation
bioBlastAutomation is a Python-based project designed to automate the process of performing BLAST search .
automation biology biopython blast django ncbi
Last synced: 24 Mar 2025
https://github.com/darwinsorchid/frataxin-structure-analysis
[Python] Structural bioinformatics analysis of the human frataxin protein involved in Friedreich's Ataxia (FRDA).
biopython pdb-files protein-structure streamlit
Last synced: 27 Oct 2025
https://github.com/yannbouyeron/genopy
Analyses génétiques et phylogénétiques pour les SVT
biopython genetique lycee numpy pandas phylogenie svt
Last synced: 02 Mar 2025
https://github.com/mkviatkovskii/bioutils
Collection of bioinformatics-related tools written in Python
bioinformatics biopython genome-analysis
Last synced: 12 Mar 2025
https://github.com/solrikk/biosynth
🔬 BioSynth is an innovative tool designed to simulate and visualize protein synthesis from DNA sequences. It integrates modern bioinformatics methods to provide a detailed understanding of the relationship between DNA sequences and their corresponding protein structures.
3d-visualization asyncio bioinformatics bioinformatics-tool biopython dna genetic-engineering genomics molecular-biology mutation protein-structure protein-synthesis py3dmol python rna
Last synced: 29 Mar 2025
https://github.com/elcharitas/bioinformatics_zero_to_hero
Bioinformatics with BioPython Course Guide
Last synced: 25 Nov 2025
https://github.com/arabiancoconut/bioflask
BioFlask is an simple web interface for pairwise alignment.
bioinformatics bioinformatics-tool biopython flask python
Last synced: 14 Aug 2025
https://github.com/giatraskon/algorithms-in-structural-bioinformatics-assignments
Assignments from the 'Algorithms in Structural Bioinformatics' graduate course, exploring RNA folding, molecular conformational analysis, and protein structure comparison using Python and bioinformatics tools.
alphafold2 bioinformatics biopython chimerax computational-biology conformational-analysis crude-energy-minimization jupyter-notebook protein-structure-analysis pymol python rmsd rna-folding root-mean-square-deviation sars-cov-2 secondary-structure-elements serotonin structural-bioinformatics structural-biology structure-visualization
Last synced: 02 Jul 2025
https://github.com/biosustain/co
Make mutated copies of DNA components in BioPython
biopython genomics microbial-genomics python
Last synced: 02 Dec 2025
https://github.com/jamesabaker/nni_supplementary_material
Supplementary scripts and files for the manuscript entitled 'Charged residues next to transmembrane regions revisited: “Positive-inside rule” is complemented by the “negative inside depletion/outside enrichment rule”'
biological-data-analysis biology biopython charged-residues dataset negative-residues science uniprot
Last synced: 09 Apr 2025
https://github.com/gabboraron/bevezetes_a_bioinformatikaba
Bevezetés a bioionformatikába
bioinformatics bioinformatics-analysis bioinformatics-databases bioinformatics-tool bioperl biopython
Last synced: 06 Apr 2025
https://github.com/yannbouyeron/yannbouyeron.github.io
Python pour les SVT
1s alignement anagene biopython clustal enzyme genetique genopy geopandas koala matplotlib-pyplot numpy pandas phylogenie python svt traduction transcription ts
Last synced: 31 Dec 2025
https://github.com/harlockofficial/deep-learning-and-computer-vision
Prediction of Protein-Protein Interaction (PPI) sites for the classification of aminoacidic interaction
bioinformatics biopython deep-learning feed-forward-neural-networks feedforward-neural-network graph-neural-networks neural-networks protein protein-protein-interaction protein-structure recurrent-neural-networks university university-assignment university-exam university-project
Last synced: 30 Jul 2025
https://github.com/berraylvc/bioseq-analyzer
DNA FASTA sequence analyzer built with Biopython
bioinformatics biopython cli fasta python sequence-analysis
Last synced: 24 Dec 2025
https://github.com/raduldev/biopython
Biopython Record Work and few extra coding excercise
bioinformatics biopython gromacs jupyter-notebook matplotlib numpy pandas python3
Last synced: 26 Oct 2025
https://github.com/duartebred/laboratorios-de-bioinformatica-g2-mbi2023-24
Repositório para apresentação de código desenvolvido pelo grupo 2 para a UC Laboratórios de Bioinformática do Mestrado em Bioinformática, ano lectivo 23-24.
Last synced: 09 Apr 2025
https://github.com/darwinsorchid/gc-content-calculator
[Python] Tool for calculating GC content of nucleotide sequences with optional sliding window analysis. Sequence input options include strings and the following file formats: FASTA, FASTA Nucleid Acid, GenBank, Aligned FASTA and ClustalW.
argparse biopython clustalw-files fasta-files gc-content genbank-files matplotlib
Last synced: 14 Sep 2025
https://github.com/kvdomingo/primerdriver-web
Mirror of kvdomingo/primerdriver-web on Gitea
biopython flask javascript primerdriver python react
Last synced: 23 Feb 2025
https://github.com/gabrielramirezv/biopython
Repository for BioPython class, belonging to the Undergraduate Program in Genomic Sciences, UNAM.
Last synced: 21 Aug 2025
https://github.com/omsai/inbase
Cache inteins.com InBase database locally as Pandas DataFrame.
biopython genomics inbase inteins
Last synced: 04 Oct 2025
https://github.com/rvinas/predicting-subcellular-location
Predicting the subcellular location of eukaryotic proteins with support vector machines
amino-acid-sequence amino-acids bioinformatics biopython proteomics random-forest svm
Last synced: 05 Aug 2025
https://github.com/rakibhhridoy/bioinformatics-geneticdatascience
This project is based on starting Bioinformatics as a life science student. Initializing a career as a Genetic Data Scientist and Bioinformatician.
bioinformatics biology biopython computer-science data-science genetic-data-science genetics genome-assembly genome-sequencing statistics
Last synced: 14 May 2025
https://github.com/leticiamilan/sitio-ligacao-proteinas
🧬 Computando o sítio de ligação em uma proteína, em Python
bioinformatics biopython protein-structure python
Last synced: 30 Mar 2025
https://github.com/ivanbgd/bioinf_demo
A Bioinformatics demo in Python working with FASTQ files and using the Modin library
bioinformatics biopython computational-biology fastq larger-than-memory modin python python3 trie
Last synced: 28 Mar 2025
https://github.com/qhdwight/gene-codon-converter-reduce-gc
Simple python program to reduce G/C content in a genetic sequence
Last synced: 21 Oct 2025
https://github.com/jmenglund/pandas-charm
Python library for getting character matrices (alignments) into and out of pandas
aligned-sequences alignment biopython character-matrix dendropy pandas python
Last synced: 01 Jul 2025
https://github.com/raduldev/datasciencepython
Interview Task From CSIR-IGIB, Delhi & maps for journal
biopython colab-notebook counter jupyter-notebook matplotlib numpy pandas
Last synced: 24 Mar 2025
https://github.com/elrf3lipes/ramon-s_portfolio
I'm passionate about Cloud and DevOps, and for the moment I'm posting some of my work and personal projects here to showcase that. If its useful for you, feel free to integrate or contribute!
api-integration biopython clinical-trials data-analysis data-extraction data-parsing django docker entrez ipython medline-xml pandas pubmed-parser requests rest-api
Last synced: 28 Dec 2025
