hendricius/the-bread-code

Learn how to master the art of baking the programmer way.

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Pioreactor/pioreactor

Hardware and software for accessible, extensible, and scalable bioreactors. Built on Raspberry Pi.

Language: Python - Size: 11 MB - Last synced at: 6 days ago - Pushed at: 7 days ago - Stars: 114 - Forks: 10

hendricius/pizza-dough

This recipe is dedicated to helping you make the best possible pizza dough for Neapolitan pizza.

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SysBioChalmers/yeast-GEM

The consensus GEM for Saccharomyces cerevisiae

Language: MATLAB - Size: 71.1 MB - Last synced at: 5 days ago - Pushed at: about 2 months ago - Stars: 109 - Forks: 49

Zhiliang-Bai/Drosophila-longevity

Single-nucleus transcriptomic profiling of gut and paired brain tissues from flies fed with lipid extracts.

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irahorecka/sgd-rest

Saccharomyces Genome Database (SGD) REST API wrapper

Language: Python - Size: 121 KB - Last synced at: about 17 hours ago - Pushed at: about 1 month ago - Stars: 5 - Forks: 0

ladyson1806/SerohijosLab-piQTL

GitHub Repository associated with the piQTL project (Mapping effects of genome-wide genetic variation to protein-protein interactions reveals molecular mechanisms of complex traits) [ Serohijos & Michnick Lab, Université de Montréal ]

Language: Jupyter Notebook - Size: 1.72 GB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 4 - Forks: 1

Msturroc/HXT_models

Julia and Python code for simulating and analysing a push-pull mathematical model of hexose transporter (HXT) gene regulation by extracellular glucose in budding yeast. Includes model selection and global sensitivity analysis functionalities based on the Montaño-Gutierrez et al. study.

Language: Julia - Size: 212 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0

sigven/AutoDRY

Autophagy Dynamics Repository Yeast

Language: R - Size: 294 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0

sboulema/Hops

Website to show possible hop substitution

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SysBioChalmers/CellFactory-ecYeastGEM

Code and data for in silico strain design for enhanced production of +100 typical bio-products with yeast as a cell-factory. Predictions are based on the ecYeastGEM model avaiable at ecModels.

Language: MATLAB - Size: 138 MB - Last synced at: about 2 months ago - Pushed at: 4 months ago - Stars: 2 - Forks: 2

kadrick57/blog

Candidiasis are yeast infection

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AitchisonLab/DeleteomeTools

R package for identifying transcriptomic similarities in single-gene yeast deletion strains within the Deleteome compendium

Language: R - Size: 195 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

ChristophReich1996/TYC-Dataset

Official and maintained implementation of the dataset paper "The TYC Dataset for Understanding Instance-Level Semantics and Motions of Cells in Microstructures" [ICCVW 2023].

Language: Python - Size: 1.44 MB - Last synced at: about 2 months ago - Pushed at: over 1 year ago - Stars: 5 - Forks: 2

BrewBuddyOrg/BrewBuddy

Brouwsoftware

Language: Pascal - Size: 153 MB - Last synced at: 23 days ago - Pushed at: over 3 years ago - Stars: 14 - Forks: 11

chrisgilmerproj/brewday

Tools for the home brewer

Language: Python - Size: 1.01 MB - Last synced at: 24 days ago - Pushed at: over 2 years ago - Stars: 25 - Forks: 2

LiLabTsinghua/Yeast-MetaTwin

The metabolic twin model of yeast

Language: Jupyter Notebook - Size: 238 MB - Last synced at: 7 months ago - Pushed at: 8 months ago - Stars: 2 - Forks: 1

SATAY-LL/Transposonmapper

This repository contains the code for the transposonmapper package to map the transposons from the SATAY sequencing data.

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dtgreene/yan-calculator

YAN Nutrient Calculator 2.1

Language: JavaScript - Size: 842 KB - Last synced at: about 1 month ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

AcubeSAT/yeast-biology

Molecular biology-related analysis with a focus on yeast strains used in the AcubeSAT nanosatellite

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IDR/idr0040-aymoz-singlecell

Metadata files for the idr0040 submission

Language: Java - Size: 1.14 MB - Last synced at: about 1 year ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 3

yoavram-lab/chuong_et_al

Repo for: Chuong et al. (2024) DNA replication errors are a major source of adaptive gene amplification

Language: Jupyter Notebook - Size: 64.7 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

sboulema/BrewDB

SQLite database with beer brewing ingredients

Language: Batchfile - Size: 511 KB - Last synced at: about 1 year ago - Pushed at: over 2 years ago - Stars: 7 - Forks: 2

Fafa87/cellstar

Algorithm for round cells identification in the brightfield microscopy images.

Language: Python - Size: 2.6 MB - Last synced at: 16 days ago - Pushed at: almost 2 years ago - Stars: 21 - Forks: 5

yjx1217/LRSDAY

LRSDAY: Long-read Sequencing Data Analysis for Yeasts

Language: Perl - Size: 155 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 29 - Forks: 8

Kivazque/SYSBIO

SYSBIO repository of ENG4BIO group within Universitat Autònoma de Barcelona (UAB) mainly regarding K. phaffi modelling.

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mukherjeevaskar267/CRISPRi_Screening_AceticAcid

Phenotypic screening of a CRISPRi strain library [Smith et 2017, Mol Syst Biol (2017)13:913] for acetic acid tolerance targeting essential and respiratory essential genes in Saccharomyces cerevisiae

Language: R - Size: 263 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

barberislab/Autonomous_minimal_cell_cycle_oscillator

Clb3-centered regulations are recurrent across distinct parameter regions in minimal autonomous cell cycle oscillator designs | Thierry D.G.A. Mondeel, Oleksandr Ivanov, Hans V. Westerhoff, Wolfram Liebermeister and Matteo Barberis | NPJ Syst. Biol. Appl. (2020) | https://doi.org/10.1038/s41540-020-0125-0

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AnimaTardeb/Meiogenix-UGDR

UGDR: a pipeline to detect and analyze recombination in yeast.

Language: Python - Size: 867 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0

fg6/YeastStrainsStudy

Scripts to download the PacBio, ONT and MiSeq datasets used in https://www.nature.com/articles/s41598-017-03996-z and run the pipelines as described in the paper or simply download the final assemblies as generated by the authors.

Language: Shell - Size: 561 KB - Last synced at: over 1 year ago - Pushed at: over 7 years ago - Stars: 3 - Forks: 5

Tomnowell/IlPane

Bread recipe design application

Language: C# - Size: 5.67 MB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0

jiehuang2000/cryp_init_caller

Language: R - Size: 4.08 MB - Last synced at: over 1 year ago - Pushed at: almost 8 years ago - Stars: 0 - Forks: 0

Daniyar1239/DIY-Bioreactor

Language: C++ - Size: 78.9 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 3 - Forks: 0

NikolasGialitsis/Yeast-Protein-Interactions

Link analysis for interactions in s.cerevisae's Proteome

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olledejong/Sfp1-Analysis

Part of MSc Biology Project (1/2). This repo contains three different analysis pipelines, which all analyse microscopy images of yeast cells. Two calculate Sfp1 NC ratios, and one calculates nuclear and whole-cell volumes.

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leilaicruz/Experimental-data-analysis-protein-copy-number-in-polarity

Microscopy data analysis for the paper: "Redundancy and the role of protein copy numbers in the cell polarization machinery of budding yeast"

Language: MATLAB - Size: 34.2 KB - Last synced at: 2 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

yeastpro/ExpressYeaself

An open source predictive model of protein expression in yeast, written in Python.

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SysBioChalmers/SLIMEr

Collection of scripts for improving lipid constraints in yeast-GEM

Language: MATLAB - Size: 6.17 MB - Last synced at: about 2 months ago - Pushed at: over 5 years ago - Stars: 4 - Forks: 1

cectri/Quantification-of-microbial-robustness

R Scripts for quantification of microbial robustness from high-throughput screenings

Size: 511 KB - Last synced at: almost 2 years ago - Pushed at: about 2 years ago - Stars: 1 - Forks: 0

michoel-lab/FindrCausalNetworkInferenceOnYeast

Tools for causal inference on yeast gene expression data.

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maranasgroup/iRhto_memote

Memote-created repository for Rhodosporidium toruloides model iRhto

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beerproto/dataset

A collection of common datasets used for brewing.

Size: 2.09 MB - Last synced at: 11 months ago - Pushed at: almost 3 years ago - Stars: 1 - Forks: 1

maranasgroup/iSace_GSM

Repository of a genome-scale metabolic model for Saccharomyces cerevisiae

Language: Jupyter Notebook - Size: 3.79 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 1

TomMakesThings/Genome-Sequence-Analysis-HMM

HMM for annotating coding regions of DNA in S. cerevisiae chromosome III

Language: Jupyter Notebook - Size: 1.32 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

nicolo-tellini/LRSDAY-Patch

Patch for LRSDAY v1.6 for Debian-based and SUSE-based OS.

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clstacy/yeastKODoublingTimes

Available at: https://clstacy.github.io/yeastKODoublingTimes/ . Doubling time estimates for haploid KO library, data from doi: 10.1093/g3journal/jkac240

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yvan-sraka/Kombucha

Simple aliases collection for YeAST

Language: Haskell - Size: 30.3 KB - Last synced at: 6 days ago - Pushed at: about 3 years ago - Stars: 1 - Forks: 0

CSB-KUL/yMap

An automated method to map yeast variants to proteins modifications and functional regions

Language: Python - Size: 11.3 MB - Last synced at: 3 days ago - Pushed at: over 7 years ago - Stars: 5 - Forks: 6

YogiOnBioinformatics/Synthetic-Biology

Presentations and work done for University of Pittsburgh course, Synthetic Biology.

Size: 16.3 MB - Last synced at: 10 months ago - Pushed at: almost 5 years ago - Stars: 2 - Forks: 0

hongzhonglu/Yeastspot3D

The package is used to conduct the mutation cluster analysis with aid of protein 3D structures for yeast.

Language: R - Size: 587 MB - Last synced at: about 2 months ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0

y9c/scmd-calmorph

Tool for quantify morphological trait of budding yeast (fork version maintained by Chang)

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dlanaras/unbeerable-pun

We don't even like beer but here we are

Language: Java - Size: 1.4 MB - Last synced at: almost 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

lil-qorgi/379-rnaseq

This is the bioinformatics workflow notebook for the analysis of wet lab-derived Candida albicans RNA-seq samples for BIOL 379.

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ewallace/Ssd1_CRACanalysis_2020

Analysis of RNA binding by S. cerevisiae Ssd1, mostly CRAC sequencing data, August 2020 through June 2021

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EngqvistLab/yeast_xylanase

A bioinformatic analysis was carried out with the goal of identifying carbohydrate-active enzymes in 332 published yeast genomes.

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mgalardini/2018koyeast

Analysis of multiple yeast strains whole-genome knockout libraries 🔬📈

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SysBioChalmers/overflow

Supplementary code and results from doi:10.1101/2020.02.20.957662

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SysBioChalmers/rhto-GEM

Genome-scale metabolic model of Rhodotorula toruloides

Language: MATLAB - Size: 22.7 MB - Last synced at: 2 months ago - Pushed at: about 5 years ago - Stars: 1 - Forks: 3

sriramsrikant/2020-CB_ABC-selectivity

Code-base for my ABC-selectivity paper in Current Biology

Language: Jupyter Notebook - Size: 2.52 MB - Last synced at: almost 2 years ago - Pushed at: about 5 years ago - Stars: 0 - Forks: 0

harryscholes/PombeAgeingGenes.jl

A Julia package to find ageing genes in S. pombe

Language: Julia - Size: 129 KB - Last synced at: 1 day ago - Pushed at: about 5 years ago - Stars: 0 - Forks: 0

rretkute/ML_gene_expression

Mathematica notebook to compare methods of ML for ribosom density on mRNA prediction

Language: Mathematica - Size: 5.66 MB - Last synced at: about 2 years ago - Pushed at: over 5 years ago - Stars: 1 - Forks: 0