pyFOOMB: Python framework for object oriented modeling of bioprocesses
Sign Up to like & getrecommendations! Published in 2021 at "Engineering in Life Sciences"
DOI: 10.1002/elsc.202000088
Abstract: Quantitative characterization of biotechnological production processes requires the determination of different key performance indicators (KPIs) such as titer, rate and yield. Classically, these KPIs can be derived by combining black‐box bioprocess modeling with non‐linear regression… read more here.
Keywords: python; framework object; object oriented; model ... See more keywords
SimPrily: A Python framework to simplify high-throughput genomic simulations
Sign Up to like & getrecommendations! Published in 2018 at "SoftwareX"
DOI: 10.1016/j.softx.2018.09.003
Abstract: Abstract Genomic simulations are an important technique used in population genetics to infer demographic history, test for regions under selection, and create datasets to validate software. However, running thousands of simulations and manipulating large loci… read more here.
Keywords: simprily python; genomic simulations; throughput; python framework ... See more keywords
pyCHARMM: Embedding CHARMM Functionality in a Python Framework.
Sign Up to like & getrecommendations! Published in 2023 at "Journal of chemical theory and computation"
DOI: 10.1021/acs.jctc.3c00364
Abstract: CHARMM is rich in methodology and functionality as one of the first programs addressing problems of molecular dynamics and modeling of biological macromolecules and their partners, e.g., small molecule ligands. When combined with the highly… read more here.
Keywords: platform; python framework; charmm; charmm functionality ... See more keywords
CBMOS: a GPU-enabled Python framework for the numerical study of center-based models
Sign Up to like & getrecommendations! Published in 2022 at "BMC Bioinformatics"
DOI: 10.1186/s12859-022-04575-4
Abstract: Background Cell-based models are becoming increasingly popular for applications in developmental biology. However, the impact of numerical choices on the accuracy and efficiency of the simulation of these models is rarely meticulously tested. Without concrete… read more here.
Keywords: numerical study; python framework; center; model ... See more keywords