bioRxiv/medRxiv TRiP Review Activity

234 Reviews — GigaScience — Bioinformatics

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Characterization and simulation of metagenomic nanopore sequencing data with Meta-NanoSim
Yang, C., Lo, T., Nip, K. M., Hafezqorani, S., Warren, R. L., Birol, I.
10.1101/2021.11.19.469328 — Posted: 2021-11-20 — Discussion: 2023-04-10  GigaScience
FAIR Data Station for Lightweight Metadata Management & Validation of Omics Studies
Nijsse, B., Schaap, P. J., Koehorst, J. J.
10.1101/2022.08.03.502622 — Posted: 2022-08-05 — Discussion: 2023-04-10  GigaScience
3D-Beacons: Decreasing the gap between protein sequences and structures through a federated network of protein structure data resources
Varadi, M., Nair, S. S., Sillitoe, I., Tauriello, G., Anyango, S., Bienert, S., Borges, C., Deshpande, M., Green, T., Hatos, A., Hegedus, T., Hekkelman, M. L., Joosten, R., Jumper, J., Laydon, A., Molodenskiy, D., Piovesan, D., Salladini, E., Salzberg, S. L., Sommer, M. J., Steinegger, M., Suhajda, E., Svergun, D., Tenorio-Ku, L., Tosatto, S., Tunyasuvunakool, K., Waterhouse, A. M., Zidek, A., Hassabis, D., Schwede, T., Orengo, C., Velankar, S.
10.1101/2022.08.01.501973 — Posted: 2022-08-03 — Discussion: 2023-03-24  GigaScience
Making Common Fund data more Findable: Catalyzing a Data Ecosystem
Charbonneau, A. L., Brady, A., Brown, C. T., Sansone, S.-A., Ma'ayan, A., Wagner, R., Carter, R., Harris, R. M., Gingrich, A., Lim, M. C. W., Munro, J. B., Clarke, D. J. B., Creasy, H. H., Rocca-Serra, P., Jeon, M., Liming, R. L., Schuler, R. E., Romano, C., Chard, K., Giglio, M., Nadendla, S., Hodges, T. K., Mandal, M., Canchi, S., Waldrop, A., White, O.
10.1101/2021.11.05.467504 — Posted: 2021-11-08 — Discussion: 2023-03-24  GigaScience
What the Phage: A scalable workflow for the identification and analysis of phage sequences
Marquet, M., Hölzer, M., Pletz, M. W., Viehweger, A., Makarewicz, O., Ehricht, R., Brandt, C.
10.1101/2020.07.24.219899 — Posted: 2020-07-25 — Discussion: 2023-03-24  GigaScience
Utilizing artificial intelligence system to build the digital structural proteome of reef-building corals
Zhu, Y., Liao, X., Han, T., Chen, J.- Y., He, C., Lu, Z.
10.1101/2022.06.27.497859 — Posted: 2022-06-30 — Discussion: 2023-03-24  GigaScience
Contrast Subgraphs Allow Comparing Homogeneous and Heterogeneous Networks Derived from Omics Data
Lanciano, T., Savino, A., Porcu, F., Cittaro, D., Bonchi, F., Provero, P.
10.1101/2022.07.26.501547 — Posted: 2022-07-27 — Discussion: 2023-03-05  GigaScience
Workflow sharing with automated metadata validation and test execution to improve the reusability of published workflows
Suetake, H., Fukusato, T., Igarashi, T., Ohta, T.
10.1101/2022.07.08.499265 — Posted: 2022-07-10 — Discussion: 2023-03-05  GigaScience
TAMPA: interpretable analysis and visualization of metagenomics-based taxon abundance profiles
Sarwal, V., Brito, J., Mangul, S., Koslicki, D. J.
10.1101/2022.04.28.489926 — Posted: 2022-04-29 — Discussion: 2023-03-05  GigaScience
Accurate and Fast Clade Assignment via Deep Learning and Frequency Chaos Game Representation
Avila Cartes, J., Anand, S., Ciccolella, S., Bonizzoni, P., Della Vedova, G.
10.1101/2022.06.13.495912 — Posted: 2022-06-13 — Discussion: 2023-03-04  GigaScience

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