Chevron optimization framework for imaging and inversion (COFII) – An open source and cloud friendly Julia language framework for seismic modeling and inversion

In seismic processing, velocity fields are commonly represented on finely sampled Cartesian grids. Attractive alternatives are unstructured grids such as meshes composed of triangles or tetrahedra. Meshes provide a space-filling framework that enables editing of velocity models while facilitating numerical tasks such as seismic modeling and inversion. In this paper, we introduce an automated process to generate meshes of subsurface velocity structures for highly resolved velocity fields without providing additional external constraints such as horizons and faults. Our analysis shows that these new meshes can represent both smooth and discontinuous velocity profiles accurately and with less computer memory than grids.

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An open-source, massively parallel code for non-LTE synthesis and inversion of spectral lines and Zeeman-induced Stokes profiles

Astronomy and Astrophysics ◽

10.1051/0004-6361/201424860 ◽

2015 ◽

Vol 577 ◽

pp. A7 ◽

Cited By ~ 84

Author(s):

H. Socas-Navarro ◽

J. de la Cruz Rodríguez ◽

A. Asensio Ramos ◽

J. Trujillo Bueno ◽

B. Ruiz Cobo

Keyword(s):

Open Source ◽

Spectral Lines ◽

Massively Parallel ◽

Parallel Code ◽

And Inversion

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DNA Chisel, a versatile sequence optimizer

Bioinformatics ◽

10.1093/bioinformatics/btaa558 ◽

2020 ◽

Vol 36 (16) ◽

pp. 4508-4509 ◽

Cited By ~ 3

Author(s):

Valentin Zulkower ◽

Susan Rosser

Keyword(s):

Open Source ◽

Dna Sequence ◽

Web Application ◽

Optimization Problems ◽

Supplementary Information ◽

Supplementary Data ◽

Sequence Optimization ◽

Sequence Design ◽

Optimization Framework ◽

Dna Sequence Design

Abstract Motivation Accounting for biological and practical requirements in DNA sequence design often results in challenging optimization problems. Current software solutions are problem-specific and hard to combine. Results DNA Chisel is an easy-to-use, easy-to-extend sequence optimization framework allowing to freely define and combine optimization specifications via Python scripts or Genbank annotations. Availability and implementation The framework is available as a web application (https://cuba.genomefoundry.org/sculpt_a_sequence) or open-source Python library (see at https://github.com/Edinburgh-Genome-Foundry/DNAChisel for code and documentation). Supplementary information Supplementary data are available at Bioinformatics online.

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