BjornFJohansson

minimal-mistakes

:triangular_ruler: Jekyll theme for building a personal site, blog, project documentation, or portfolio.

Linux-Bash-Commands

:godmode: Ultimate list of Linux bash commands, cheatsheets and resources

StringZilla

Up to 10x faster strings for C, C++, Python, Rust, and Swift, leveraging SWAR and SIMD on Arm Neon and x86 AVX2 & AVX-512-capable chips to accelerate search, sort, edit distances, alignment scores, etc 🦖

bioconda-recipes

Conda recipes for the bioconda channel.

novathesis

A LaTeX template for academic monographs (e.g., dissertations and thesis). This template serves both beginners and proficient LaTeX users.

flaskwebgui

Create desktop applications with Flask/Django/FastAPI!

pytest-plugins

A grab-bag of nifty pytest plugins

rootstock

Clone me to create your Manubot manuscript

bioSyntax

Syntax highlighting for computational biology

citizen-science

🔬 A repository of resources related to citizen, community-based and/or non-institutional science

msoffice

seqviz

a JavaScript DNA, RNA, and protein sequence viewer

DnaChisel

:pencil2: A versatile DNA sequence optimizer

gravis

Interactive graph visualizations with Python and HTML/CSS/JS.

openchrom

Visualization and Analysis of mass spectrometric and chromatographic data.

CNApy

An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as thermodynamic methods, extended Minimal Cut Sets, OptKnock, RobustKnock, OptCouple and more!

SnapGeneFileReader

A Python project to read and write Snapgene *.dna into dict, json, and biopython object.

plasmidviewer

Python library to visualize circular plasmid maps

PenSimPy

The Python implementation of IndPenSim

ColonyCountingML

Colony counting for CS4641

gb-io.py

A Python interface to gb-io, a fast GenBank parser written in Rust.

tatapov

:paw_prints: DNA overhang misannealing data for Python

GoldenHinges

:link: Short overhangs design for DNA assembly

getwriting

Clean, beautiful Latex template for academic articles

nXd3

Use d3.js to make interactive visualisations of NetworkX graphs.

CRISPRedict

CRISPRedict is an interpretable gRNA efficiency prediction model for CRISPR-Cas9 gene editing.

duval

Lyndon factorization and smallest rotation 🪢

obsidian-paperpile-sync

Export paperpile annotations to Obsidian markdown.

seguid

SEGUID checksum calculator for biological sequences

PyDNA_CF_Simulator

ChatGPT plugin wrapper to simulate Construction Files using pydna