Personalized tumor combination therapy optimization using the single-cell transcriptome by Chen Tang, Shaliu Fu, Xuan Jin, Wannian Li, Feiyang Xing, Bin Duan, Xiaojie Cheng, Xiaohan Chen, Shuguang Wang, Chenyu Zhu, Gaoyang Li, Guohui Chuai, Yayi He, Ping Wang, Qi Liu

“…The source code is also available on GitHub at https://github.com/bm2-lab/comboSC .…”
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Benchmark datasets for SARS-CoV-2 surveillance bioinformatics by Lingzi Xiaoli, Jill V. Hagey, Daniel J. Park, Christopher A. Gulvik, Erin L. Young, Nabil-Fareed Alikhan, Adrian Lawsin, Norman Hassell, Kristen Knipe, Kelly F. Oakeson, Adam C. Retchless, Migun Shakya, Chien-Chi Lo, Patrick Chain, Andrew J. Page, Benjamin J. Metcalf, Michelle Su, Jessica Rowell, Eshaw Vidyaprakash, Clinton R. Paden, Andrew D. Huang, Dawn Roellig, Ketan Patel, Kathryn Winglee, Michael R. Weigand, Lee S. Katz

“…The dataset summary table, data mining script and quality control (QC) values for all sequence data are publicly available on GitHub: https://github.com/CDCgov/datasets-sars-cov-2. …”
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The Farmer: A Reproducible Profile-fitting Photometry Package for Deep Galaxy Surveys by J. R. Weaver, L. Zalesky, V. Kokorev, C. J. R. McPartland, N. Chartab, K. M. L. Gould, M. Shuntov, I. Davidzon, A. Faisst, N. Stickley, P. L. Capak, S. Toft, D. Masters, B. Mobasher, D. B. Sanders, O. B. Kauffmann, H. J. McCracken, O. Ilbert, G. Brammer, A. Moneti

“…The Farmer is available to download from GitHub ( https://github.com/astroweaver/the_farmer ) and Zenodo ( https://doi.org/10.5281/zenodo.8205817 ).…”
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Creating lightweight FAIR Digital Objects with RO-Crate by Stian Soiland-Reyes, Peter Sefton, Leyla Jael Castro, Frederik Coppens, Daniel Garijo, Simone Leo, Marc Portier, Paul Groth

“…This is a powerful construct for interoperability across FAIR repositories, but this raises some challenges with regards to mutability and persistence of crates.To illustrate how such challenges can be handled, we detail how the WorkflowHub repository follows several FDO principles:Workflow entries must be frozen for editing and have complete kernel metadata (title, authors, license, description) [FDOF4] before they can be assigned a persistent identifier, e.g. https://doi.org/10.48546/workflowhub.workflow.255.1 [FDOF1]Computational workflows can be composed of multiple files used as a whole, e.g. CWL files in a GitHub repository. These are snapshotted as a single RO-Crate ZIP, indicating the main workflow. …”
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A deep learning approach to photo–identification demonstrates high performance on two dozen cetacean species by Philip T. Patton, Ted Cheeseman, Kenshin Abe, Taiki Yamaguchi, Walter Reade, Ken Southerland, Addison Howard, Erin M. Oleson, Jason B. Allen, Erin Ashe, Aline Athayde, Robin W. Baird, Charla Basran, Elsa Cabrera, John Calambokidis, Júlio Cardoso, Emma L. Carroll, Amina Cesario, Barbara J. Cheney, Enrico Corsi, Jens Currie, John W. Durban, Erin A. Falcone, Holly Fearnbach, Kiirsten Flynn, Trish Franklin, Wally Franklin, Bárbara Galletti Vernazzani, Tilen Genov, Marie Hill, David R. Johnston, Erin L. Keene, Sabre D. Mahaffy, Tamara L. McGuire, Liah McPherson, Catherine Meyer, Robert Michaud, Anastasia Miliou, Dara N. Orbach, Heidi C. Pearson, Marianne H. Rasmussen, William J. Rayment, Caroline Rinaldi, Renato Rinaldi, Salvatore Siciliano, Stephanie Stack, Beatriz Tintore, Leigh G. Torres, Jared R. Towers, Cameron Trotter, Reny Tyson Moore, Caroline R. Weir, Rebecca Wellard, Randall Wells, Kymberly M. Yano, Jochen R. Zaeschmar, Lars Bejder

“…Finally, we note that this model is currently freely available as code in a GitHub repository and as a graphical user interface, with additional functionality for collaborative data management, via Happywhale.com.…”
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First VLTI/GRAVITY Observations of HIP 65426 b: Evidence for a Low or Moderate Orbital Eccentricity by Sarah Blunt, W. O. Balmer, J. J. Wang, S. Lacour, S. Petrus, G. Bourdarot, J. Kammerer, N. Pourré, E. Rickman, J. Shangguan, T. Winterhalder, R. Abuter, A. Amorim, R. Asensio-Torres, M. Benisty, J.-P. Berger, H. Beust, A. Boccaletti, A. Bohn, M. Bonnefoy, H. Bonnet, W. Brandner, F. Cantalloube, P. Caselli, B. Charnay, G. Chauvin, A. Chavez, E. Choquet, V. Christiaens, Y. Clénet, V. Coudé du Foresto, A. Cridland, R. Dembet, A. Drescher, G. Duvert, A. Eckart, F. Eisenhauer, H. Feuchtgruber, P. Garcia, R. Garcia Lopez, E. Gendron, R. Genzel, S. Gillessen, J. H. Girard, X. Haubois, G. Heißel, Th. Henning, S. Hinkley, S. Hippler, M. Horrobin, M. Houllé, Z. Hubert, L. Jocou, M. Keppler, P. Kervella, L. Kreidberg, A.-M. Lagrange, V. Lapeyrère, J.-B. Le Bouquin, P. Léna, D. Lutz, A.-L. Maire, F. Mang, G.-D. Marleau, A. Mérand, P. Mollière, J. D. Monnier, C. Mordasini, D. Mouillet, E. Nasedkin, M. Nowak, T. Ott, G. P. P. L. Otten, C. Paladini, T. Paumard, K. Perraut, G. Perrin, O. Pfuhl, L. Pueyo, J. Rameau, L. Rodet, Z. Rustamkulov, T. Shimizu, D. Sing, T. Stolker, C. Straubmeier, E. Sturm, L. J. Tacconi, E. F. van Dishoeck, A. Vigan, F. Vincent, K. Ward-Duong, F. Widmann, E. Wieprecht, E. Wiezorrek, J. Woillez, S. Yazici, A. Young, The exoGRAVITY collaboration

“…Analysis code used to perform this work is available on GitHub: https://github.com/sblunt/hip65426 .…”
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