A flexible model for correlated count data, with application to multicondition differential expression analyses of single-cell RNA sequencing data. (English) Zbl 07923943
MSC:
62Pxx
Found 1,396 Documents (Results 1–100)
Multiscale Poisson process approaches for detecting and estimating differences from high-throughput sequencing assays. (English) Zbl 07923906
MSC:
62Pxx
Erratum to: “Competitive two-agent scheduling and its applications”. (English) Zbl 07907225
MSC:
90B35
Modeling and solving the fuel distribution problem with unloading precedence and loading sequence considerations. (English) Zbl 07905467
Ensemble methods for testing a global null. (English) Zbl 07878605
MSC:
62-XX
Solution algorithms for dock scheduling and truck sequencing in cross-docks: a neural branch-and-price and a metaheuristic. (English) Zbl 07877722
MSC:
90Bxx
Exploiting symmetry for the job sequencing and tool switching problem. (English) Zbl 07874497
MSC:
90Bxx
Improving order picking efficiency through storage assignment optimization in robotic mobile fulfillment systems. (English) Zbl 07874476
MSC:
90Bxx
The maximum length car sequencing problem. (English) Zbl 07874475
MSC:
90Bxx
Biased random-key genetic algorithm for the job sequencing and tool switching problem with non-identical parallel machines. (English) Zbl 07860773
MSC:
90Bxx
Double moves by each player in chess openings make the game fairer. (English) Zbl 1537.91058
Jones, Michael A. (ed.) et al., Mathematics of decisions, elections and games. AMS special session, virtual, April 8, 2022. Providence, RI: American Mathematical Society (AMS). Contemp. Math. 795, 189-197 (2024).
MSC:
91A46
Accurate estimation of rare cell-type fractions from tissue omics data via hierarchical deconvolution. (English) Zbl 07832604
MSC:
62Pxx
Optimal sequencing using a scheduling heuristic. (English) Zbl 07765523
MSC:
90Bxx
Bidirectional green waves for major road axes by adjusting separate left-turn phases. (English) Zbl 07914498
Grothe, Oliver (ed.) et al., Operations research proceedings 2022. Selected papers of the annual international conference of the German Operations Research Society (GOR), Karlsruhe, Germany, September 6–9, 2022. Cham: Springer. Lect. Notes Oper. Res., 495-502 (2023).
Cooperative game theory based coordinated scheduling of two-machine flow-shop and transportation. (English) Zbl 07903326
Cell-level pathway scoring comparison with a biologically constrained variational autoencoder. (English) Zbl 1533.92157
Pang, Jun (ed.) et al., Computational methods in systems biology. 21st international conference, CMSB 2023, Luxembourg City, Luxembourg, September 13–15, 2023. Proceedings. Cham: Springer. Lect. Notes Comput. Sci. 14137, 62-77 (2023).
MSC:
92D20
Parallel power system restoration. (English) Zbl 07809828
MSC:
90Cxx
Numerical schemes for a moving-boundary convection-diffusion-reaction model of sequencing batch reactors. (English) Zbl 1530.65081
Joint gene network construction by single-cell RNA sequencing data. (English) Zbl 1522.62123
MSC:
62P10
An eigenvalue ratio approach to inferring population structure from whole genome sequencing data. (English) Zbl 1522.62268
MSC:
62P10
Mathematical models for the cutting stock with limited open stacks problem. (English) Zbl 1533.90006
On latent idealized models in symbolic datasets: unveiling signals in noisy sequencing data. (English) Zbl 07713563
0-1 mathematical programming models for flexible process planning. (English) Zbl 07709272
MSC:
90Bxx
Hardness of flow time minimization in a crossdock with a single door and asymmetric handover relations. (English) Zbl 1525.90053
Minimum cost trend-free \(2^{n -(n - k)}\) fractional factorial designs of resolution IV derivable from the normalized Sylvester-Hadamard matrices. (English) Zbl 07699981
Counting unique molecular identifiers in sequencing using a multi-type branching process with immigration. (English) Zbl 1504.92092
MSC:
92D20
New exact and heuristic algorithms to solve the prize-collecting job sequencing problem with one common and multiple secondary resources. (English) Zbl 1541.90148
Stronger mixed-integer programming-formulations for order- and rack-sequencing in robotic mobile fulfillment systems. (English) Zbl 1541.90013
Accurate \(k\)-mer classification using read profiles. (English) Zbl 07896506
Boucher, Christina (ed.) et al., 22nd international workshop on algorithms in bioinformatics, WABI 2022, Potsdam, Germany, September 5–7, 2022. Wadern: Schloss Dagstuhl – Leibniz-Zentrum für Informatik. LIPIcs – Leibniz Int. Proc. Inform. 242, Article 10, 20 p. (2022).
A multiview model for relative and absolute microbial abundances. (English) Zbl 1520.62371
MSC:
62P10
A semiparametric model for between-subject attributes: applications to beta-diversity of microbiome data. (English) Zbl 1520.62266
MSC:
62P10
Modeling dynamic correlation in zero-inflated bivariate count data with applications to single-cell RNA sequencing data. (English) Zbl 1520.62388
MSC:
62P10
A 0-1 mixed-integer program-based group-and-release strategy for solving the integrated runway scheduling and taxiway routing problem. (English) Zbl 1523.90154
A new variable neighbourhood search with a constraint programming search strategy for the open shop scheduling problem with operation repetitions. (English) Zbl 1523.90195
A minimax optimal ridge-type set test for global hypothesis with applications in whole genome sequencing association studies. (English) Zbl 1507.62344
Simultaneous detection of signal regions using quadratic scan statistics with applications to whole genome association studies. (English) Zbl 1507.62120
Iterative bicluster-based Bayesian principal component analysis and least squares for missing-value imputation in microarray and RNA-sequencing data. (English) Zbl 1508.92189
Comparison of cell state models derived from single-cell RNA sequencing data: graph versus multi-dimensional space. (English) Zbl 1508.92076
A moving-boundary model of reactive settling in wastewater treatment. II: numerical scheme. (English) Zbl 1505.35252
A moving-boundary model of reactive settling in wastewater treatment. I: governing equations. (English) Zbl 1503.35097
Sequential vote buying. (English) Zbl 1504.91232
Good point sequencings of Steiner triple systems. (English) Zbl 1505.05028
Reviewer: Charles J. Colbourn (Tempe)
MSC:
05B07
Nonparametric Bayesian two-level clustering for subject-level single-cell expression data. (English) Zbl 07601219
MSC:
62-XX
Liberalizing trade and capital flows and the wage gap: does sequencing matter? (English) Zbl 1498.91257
MSC:
91B60
Block avoiding point sequencings of partial Steiner systems. (English) Zbl 1505.05024
Reviewer: Zhaoping Meng (Jinan)
Contrastive latent variable modeling with application to case-control sequencing experiments. (English) Zbl 1498.62228
Unsupervised integration of single-cell multi-omics datasets with disproportionate cell-type representation. (English) Zbl 1496.92065
Pe’er, Itsik (ed.), Research in computational molecular biology. 26th annual international conference, RECOMB 2022, San Diego, CA, USA, May 22–25, 2022. Proceedings. Cham: Springer. Lect. Notes Comput. Sci. 13278, 3-19 (2022).
Benchmarking penalized regression methods in machine learning for single cell RNA sequencing data. (English) Zbl 1496.92075
Jin, Lingling (ed.) et al., Comparative genomics. 19th international conference, RECOMB-CG 2022, La Jolla, CA, USA, May 20–21, 2022. Proceedings. Cham: Springer. Lect. Notes Comput. Sci. 13234, 295-310 (2022).
GMEPS: a fast and efficient likelihood approach for genome-wide mediation analysis under extreme phenotype sequencing. (English) Zbl 1494.92068
Improved rank-modulation codes for DNA storage with shotgun sequencing. (English) Zbl 1505.94034
MSC:
94A29
Matheuristics for the flowshop scheduling problem with controllable processing times and limited resource consumption to minimize total tardiness. (English) Zbl 1520.90123
Testing differentially methylated regions through functional principal component analysis. (English) Zbl 07540755
MSC:
62-XX
Variant-specific interventions to slow down replacement and prevent outbreaks. (English) Zbl 1486.92254
Assortment optimization with repeated exposures and product-dependent patience cost. (English) Zbl 1525.90242
Mixed integer programming approaches to partial disassembly line balancing and sequencing problem. (English) Zbl 1511.90145
Integrated optimization of test case selection and sequencing for reliability testing of the mainboard of Internet backbone routers. (English) Zbl 1495.90087
MSC:
90B35
An optimal data-splitting algorithm for aircraft sequencing on a single runway. (English) Zbl 1481.90185
An exact algorithm for the redundancy allocation problem with heterogeneous components under the mixed redundancy strategy. (English) Zbl 1490.90107
Optimization of departure runway scheduling incorporating arrival crossings. (English) Zbl 07768059
MSC:
90-XX
Poisson PCA: Poisson measurement error corrected PCA, with application to microbiome data. (English) Zbl 1520.62249
MSC:
62P10
A novel statistical method for modeling covariate effects in bisulfite sequencing derived measures of DNA methylation. (English) Zbl 1520.62407
MSC:
62P10
Sequencing mixed-model assembly lines with demand management: problem development and efficient multi-objective algorithms. (English) Zbl 1523.90129
A Bayes factor approach with informative prior for rare genetic variant analysis from next generation sequencing data. (English) Zbl 1520.62380
MSC:
62P10
Zero-inflated Poisson factor model with application to microbiome read counts. (English) Zbl 1520.62382
MSC:
62P10
Compression of multiple \(k\)-mer sets by iterative SPSS decomposition. (English) Zbl 1519.92165
Carbone, Alessandra (ed.) et al., 21st international workshop on algorithms in bioinformatics, WABI 2021, August 2–4, 2021, virtual conference. Proceedings. Wadern: Schloss Dagstuhl – Leibniz-Zentrum für Informatik. LIPIcs – Leibniz Int. Proc. Inform. 201, Article 12, 17 p. (2021).
A statistical perspective on the challenges in molecular microbial biology. (English) Zbl 07603058
MSC:
62P12
Poisson-Tweedie mixed-effects model: a flexible approach for the analysis of longitudinal RNA-seq data. (English) Zbl 07506792
Stat. Model. 21, No. 6, 520-545 (2021); correction ibid. 21, No. 5, 471 (2021).
MSC:
62-XX
Solving a bi-objective mixed-model assembly-line sequencing using metaheuristic algorithms considering ergonomic factors, customer behavior, and periodic maintenance. (English) Zbl 07498639
Probabilistic models of \(k\)-mer frequencies (extended abstract). (English) Zbl 07495171
De Mol, Liesbeth (ed.) et al., Connecting with computability. 17th conference on computability in Europe, CiE 2021, virtual event, Ghent, Belgium, July 5–9, 2021. Proceedings. Cham: Springer. Lect. Notes Comput. Sci. 12813, 227-236 (2021).
MSC:
68Qxx
Joint optimization of order sequencing and rack scheduling in the robotic mobile fulfilment system. (English) Zbl 1511.90087
Integrated real-time control of mixed-model assembly lines and their part feeding processes. (English) Zbl 1511.90143
MSC:
90B30
Comparison of BWA-MEM and NovoAlign using human whole-genome next-generation sequencing reads. (Chinese. English summary) Zbl 1488.92045
MSC:
92D20
New results for scheduling to minimize tardiness on one machine with rejection and related problems. (English) Zbl 1479.90099
A Bayesian nonparametric model for inferring subclonal populations from structured DNA sequencing data. (English) Zbl 1477.62312
RESCOT: restriction enzyme set and combination optimization tools for rNMP capture techniques. (English) Zbl 1518.92069
Solution procedures for block selection and sequencing in flat-bedded potash underground mines. (English) Zbl 1476.90132
A kernel non-negative matrix factorization framework for single cell clustering. (English) Zbl 1481.92045
Three categories of minimum cost trend resistant \(2^n\) factorial experiments derivable from the normalized Sylvester-Hadamard matrices of size \(2^n \times 2^n\). (English) Zbl 1477.62206
\(\mathrm{A}^\ast\) search for prize-collecting job sequencing with one common and multiple secondary resources. (English) Zbl 1480.90133
Appointment scheduling and real-time sequencing strategies for patient unpunctuality. (English) Zbl 1487.90313
Modeling and solving of virtual re-sequencing problem in car painting. (Chinese. English summary) Zbl 1488.90059
Heuristic methods for the single-machine scheduling problem with periodical resource constraints. (English) Zbl 1471.90072
Determination of risk groups for the COVID-19 underlying deseases. (English. Russian original) Zbl 1470.92228
Cybern. Syst. Anal. 57, No. 2, 223-227 (2021); translation from Kibern. Sist. Anal. 57, No. 2, 62-68 (2021).
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