bioRxiv/medRxiv TRiP Review Activity

264 Reviews — GigaScience — Bioinformatics

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xAtlas: Scalable small variant calling across heterogeneous next-generation sequencing experiments
Farek, J., Hughes, D., Mansfield, A., Krasheninina, O., Nasser, W., Sedlazeck, F. J., Khan, Z., Venner, E., Metcalf, G., Boerwinkle, E., Muzny, D. M., Gibbs, R. A., Salerno, W.
10.1101/295071 — Posted: 2018-04-05 — Discussion: 2023-03-04  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
Meta-Prism 2.0: Enabling algorithm for ultra-fast, accurate and memory-efficient search among millions of microbial community samples
Kang, K., Chong, H., Ning, K.
10.1101/2020.11.17.387811 — Posted: 2020-11-20 — Discussion: 2023-03-01  GigaScience
DeePVP: Identification and classification of phage virion protein using deep learning
Fang, Z., Feng, T., Zhou, H.
10.1101/2021.10.23.465539 — Posted: 2021-10-24 — Discussion: 2023-03-01  GigaScience
SurvBenchmark: comprehensive benchmarking study of survival analysis methods using both omics data and clinical data
Zhang, Y., Wong, G., Mann, G., Muller, S., Yang, J. Y. H.
10.1101/2021.07.11.451967 — Posted: 2021-07-12 — Discussion: 2023-03-01  GigaScience
Stardust: improving spatial transcriptomics data analysis through space aware modularity optimization based clustering.
Avesani, S., Viesi, E., Alessandrì, L., Motterle, G., Bonnici, V., Beccuti, M., Calogero, R., Giugno, R.
10.1101/2022.04.27.489655 — Posted: 2022-04-28 — Discussion: 2023-03-01  GigaScience
Disease classification for whole blood DNA methylation: meta-analysis, missing values imputation, and XAI
Kalyakulina, A., Yusipov, I., Bacalini, M. G., Franceschi, C., Vedunova, M., Ivanchenko, M.
10.1101/2022.05.10.491404 — Posted: 2022-05-11 — Discussion: 2023-02-17  GigaScience
BrumiR: A toolkit for de novo discovery of microRNAs from sRNA-seq data.
Moraga, C., Sanchez, E., Galvao Ferrarini, M., Gutierrez, R. A., Vidal, E. A., Sagot, M.-F.
10.1101/2020.08.07.240689 — Posted: 2020-08-07 — Discussion: 2023-02-17  GigaScience
Loop detection using Hi-C data with HiCExplorer
Wolff, J., Backofen, R., Gruening, B.
10.1101/2020.03.05.979096 — Posted: 2020-03-06 — Discussion: 2023-02-15  GigaScience
Profiling the baseline performance and limits of machine learning models for adaptive immune receptor repertoire classification
Kanduri, C., Pavlovic, M., Scheffer, L., Motwani, K., Chernigovskaya, M., Greiff, V., Sandve, G. K.
10.1101/2021.05.23.445346 — Posted: 2021-05-23 — Discussion: 2023-02-15  GigaScience

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