Search results for "re-sequencing"

Hits ?▲	Authors	Title	Venue	Year	Link
10	Tessa Beauchat, Yuqing Hu, Robert M. Leicht, Clinton Suanico	Analyzing Schedule Dependency and Sequencing Changes for Robotic Construction Using Graph Analysis.	J. Comput. Civ. Eng.	2023	DBLP DOI BibTeX RDF
10	Steven A. Eschrich, Xiaoqing Yu, Jamie K. Teer	Fast all versus all genotype comparison using DNA/RNA sequencing data: method and workflow.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Kobe Janssen, Ramon Duran-Romaña, Guy Bottu, Mainak Guharoy, Alexander Botzki, Frederic Rousseau 0001, Joost Schymkowitz	SNPeffect 5.0: large-scale structural phenotyping of protein coding variants extracted from next-generation sequencing data using AlphaFold models.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Cheng Yong Tham, Touati Benoukraf	Correspondence on NanoVar's performance outlined by Jiang T. et al. in "Long-read sequencing settings for efficient structural variation detection based on comprehensive evaluation".	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Yue Pan, T. Landis Justin, Razia Moorad, Di Wu, J. S. Marron, Dirk P. Dittmer	The Poisson distribution model fits UMI-based single-cell RNA-sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Petter Mostad, Andreas Tillmar, Daniel Kling	Improved computations for relationship inference using low-coverage sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Alvin Farrel, Peng Li, Sharon Veenbergen, Khushbu Patel, John M. Maris, Warren J. Leonard	ROGUE: an R Shiny app for RNA sequencing analysis and biomarker discovery.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Thomas A. Delomas, Stuart C. Willis	Estimating microhaplotype allele frequencies from low-coverage or pooled sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Yunqing Liu, Jiayi Zhao, Taylor Sterling Adams, Ningya Wang, Jonas Schupp, Weimiao Wu, John E. McDonough, Geoffrey Lowell Chupp, Naftali Kaminski, Zuoheng Wang, Xiting Yan	Correction: iDESC: identifying differential expression in single-cell RNA sequencing data with multiple subjects.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Chaoran Chen, Alexander Taepper, Fabian Engelniederhammer, Jonas Kellerer, Cornelius Roemer, Tanja Stadler	LAPIS is a fast web API for massive open virus sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Nicholas J. Eagles, Richard Wilton, Andrew E. Jaffe, Leonardo Collado-Torres	BiocMAP: a Bioconductor-friendly, GPU-accelerated pipeline for bisulfite-sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Xu Zhu, Lili Zhao, Lihong Huang, Wenxian Yang, Liansheng Wang, Rongshan Yu	cgMSI: pathogen detection within species from nanopore metagenomic sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Peter Y. Wang, David P. Bartel	A statistical approach for identifying primary substrates of ZSWIM8-mediated microRNA degradation in small-RNA sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Yunqing Liu, Jiayi Zhao, Taylor Sterling Adams, Ningya Wang, Jonas Schupp, Weimiao Wu, John E. McDonough, Geoffrey Lowell Chupp, Naftali Kaminski, Zuoheng Wang, Xiting Yan	iDESC: identifying differential expression in single-cell RNA sequencing data with multiple subjects.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Abdullah Karaaslanli, Satabdi Saha, Tapabrata Maiti, Selin Aviyente	Kernelized multiview signed graph learning for single-cell RNA sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Völundur Hafstað, Jari Häkkinen, Helena Persson	Fast and sensitive validation of fusion transcripts in whole-genome sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Kun Wang, Xiao Zhang, Hansen Cheng, Wenhao Ma, Guangchao Bao, Liting Dong, Yixiong Gou, Jian Yang, Haoyang Cai	SingleScan: a comprehensive resource for single-cell sequencing data processing and mining.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Huijing Yu, Zhenxian Zheng, Junhao Su, Tak Wah Lam, Ruibang Luo	Boosting variant-calling performance with multi-platform sequencing data using Clair3-MP.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Koen Swaerts, Franceska Dedeurwaerdere, Dieter De Smet, Peter De Jaeger, Geert A. Martens	DeltaMSI: artificial intelligence-based modeling of microsatellite instability scoring on next-generation sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Sungyoung Lee, Choong-Hyun Sun, Heejun Jang, Daeyoon Kim, Sung-Soo Yoon, Youngil Koh, Seung Chan Na, Sung Im Cho, Man Jin Kim, Moon-Woo Seong, Ja Min Byun, Hongseok Yun	ITDetect: a method to detect internal tandem duplication of FMS-like tyrosine kinase (FLT3) from next-generation sequencing data with high sensitivity and clinical application.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Tao Jiang 0021, Shiqi Liu, Hongzhe Guo	Reply: Correspondence on NanoVar's performance outlined by Jiang T. et al. in 'Long-read sequencing settings for efficient structural variation detection based on comprehensive evaluation'.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Nicholas K. O'Neill, Thor D. Stein, Junming Hu, Habbiburr Rehman, Joshua D. Campbell, Masanao Yajima, Xiaoling Zhang, Lindsay A. Farrer	Bulk brain tissue cell-type deconvolution with bias correction for single-nuclei RNA sequencing data using DeTREM.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	John K. L. Wong, Lena Jassowicz, Christel Herold-Mende, Martina Seiffert, Jan-Phillip Mallm, Peter Lichter, Marc Zapatka	scSNPdemux: a sensitive demultiplexing pipeline using single nucleotide polymorphisms for improved pooled single-cell RNA sequencing analysis.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Irene Ortega-Sanz, José Antonio Barbero-Aparicio, Antonio Canepa-Oneto, Jordi Rovira, Beatriz Melero	CamPype: an open-source workflow for automated bacterial whole-genome sequencing analysis focused on Campylobacter.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Koki Tsuyuzaki, Manabu Ishii, Itoshi Nikaido	Sctensor detects many-to-many cell-cell interactions from single cell RNA-sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Mikhail Gudkov, Loïc Thibaut, Matloob Khushi, Gillian M. Blue, David S. Winlaw, Sally L. Dunwoodie, Eleni Giannoulatou	ConanVarvar: a versatile tool for the detection of large syndromic copy number variation from whole-genome sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Jinghan Yang, Yuyang Xu, Minhao Yao, Gao Wang, Zhonghua Liu	ERStruct: a fast Python package for inferring the number of top principal components from whole genome sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Xu Chen, Chuang Peng, Yu Chen, Bai Ding, Sulai Liu, Yinghui Song, Yuhang Li, Bo Sun, Ranzhiqiang Yang	A T-cell-related signature for prognostic stratification and immunotherapy response in hepatocellular carcinoma based on transcriptomics and single-cell sequencing.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Michael J. Casey, Jörg Fliege, Rubén J. Sánchez-García, Ben D. MacArthur	An information-theoretic approach to single cell sequencing analysis.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Gwangwoo Kim, Hyonho Chun	Similarity-assisted variational autoencoder for nonlinear dimension reduction with application to single-cell RNA sequencing data.	BMC Bioinform.	2023	DBLP DOI BibTeX RDF
10	Daniele M. Papetti, Simone Spolaor, Iman Nazari, Andrea Tirelli, Tommaso Leonardi, Chiara Caprioli, Daniela Besozzi, Thalia Vlachou, Pier Giuseppe Pelicci, Paolo Cazzaniga, Marco S. Nobile	Barcode demultiplexing of nanopore sequencing raw signals by unsupervised machine learning.	Frontiers Bioinform.	2023	DBLP DOI BibTeX RDF
10	Jared Huzar, Madelyn Shenoy, Maxwell D. Sanderford, Sudhir Kumar 0001, Sayaka Miura	Bootstrap confidence for molecular evolutionary estimates from tumor bulk sequencing data.	Frontiers Bioinform.	2023	DBLP DOI BibTeX RDF
10	Gabriel Wajnberg, Eric P. Allain, Jeremy W. Roy, Shruti Srivastava, Daniel Saucier, Pier Morin, Alier Marrero, Colleen O'connell, Anirban Ghosh 0003, Stephen M. Lewis, Rodney J. Ouellette, Nicolas Crapoulet	Application of annotation-agnostic RNA sequencing data analysis tools for biomarker discovery in liquid biopsy.	Frontiers Bioinform.	2023	DBLP DOI BibTeX RDF
10	Marco Viviani 0002, Marilisa Montemurro, Livio Trusolino, Andrea Bertotti, Gianvito Urgese, Elena Grassi	EGAsubmitter: A software to automate submission of nucleic acid sequencing data to the European Genome-phenome Archive.	Frontiers Bioinform.	2023	DBLP DOI BibTeX RDF
10	Joseph R. Cruise, Alexander Seidel	Sequencing the Entangled DNA of Fractional Quantum Hall Fluids.	Symmetry	2023	DBLP DOI BibTeX RDF
10	Muhammad Adrian, Roedhy Poerwanto, Eiichi Inoue, Deden Derajat Matra	Transcriptome Dataset of Strawberry (Fragaria × ananassa Duch.) Leaves Using Oxford Nanopore Sequencing under LED Irradiation and Application of Methyl Jasmonate and Methyl Salicylate Hormones Treatment.	Data	2023	DBLP DOI BibTeX RDF
10	Chengran Lin, Zhengcai Cao, MengChu Zhou	Learning-Based Cuckoo Search Algorithm to Schedule a Flexible Job Shop With Sequencing Flexibility.	IEEE Trans. Cybern.	2023	DBLP DOI BibTeX RDF
10	Bassel Ghaddar, Martin J. Blaser, Subhajyoti De	Denoising sparse microbial signals from single-cell sequencing of mammalian host tissues.	Nat. Comput. Sci.	2023	DBLP DOI BibTeX RDF
10	Jamie Costley, Christopher Henry Lange	The mediating effect of sequencing and fading on the relationship between e-learning personalization and germane load.	Interact. Learn. Environ.	2023	DBLP DOI BibTeX RDF
10	Jia Wen Li 0001, Shovan Barma, Sio-Hang Pun, Mang I Vai, Peng Un Mak	Emotion Recognition Based on EEG Brain Rhythm Sequencing Technique.	IEEE Trans. Cogn. Dev. Syst.	2023	DBLP DOI BibTeX RDF
10	Peter Juma Ochieng, Zoltán Maróti, József Dombi 0001, Miklós Krész, József Békési, Tibor Kalmár	Adaptive Savitzky-Golay Filters for Analysis of Copy Number Variation Peaks from Whole-Exome Sequencing Data.	Inf.	2023	DBLP DOI BibTeX RDF
10	Hongyu Gao, Weipeng Yang, Yunxiao Jiang	Computational thinking in early childhood is underpinned by sequencing ability and self-regulation: a cross-sectional study.	Educ. Inf. Technol.	2023	DBLP DOI BibTeX RDF
10	Yue Cao, Shila Ghazanfar, Pengyi Yang, Jean Y. H. Yang	Benchmarking of analytical combinations for COVID-19 outcome prediction using single-cell RNA sequencing data.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Guiying Wu, Mengmeng Song, Ke Wang, Tianyu Cui, Zicong Jiao, Liyan Ji, Xuan Gao, Jiayin Wang, Tao Liu, Xuefeng Xia, Huan Fang 0005, Yanfang Guan, Xin Yi	DELFMUT: duplex sequencing-oriented depth estimation model for stable detection of low-frequency mutations.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Kerui Peng, Theodore S. Nowicki, Katie Campbell, Mohammad Vahed, Dandan Peng, Yiting Meng, Anish Nagareddy, Yu-Ning Huang, Aaron Karlsberg, Zachary Miller, Jaqueline J. Brito, Brian B. Nadel, Victoria M. Pak, Malak S. Abedalthagafi, Amanda M. Burkhardt, Houda Alachkar, Antoni Ribas, Serghei Mangul	Rigorous benchmarking of T-cell receptor repertoire profiling methods for cancer RNA sequencing.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Lu Yang, Jun Chen	Benchmarking differential abundance analysis methods for correlated microbiome sequencing data.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Ruoxing Li, Mehmet Altan, Alexandre Reuben, Ruitao Lin, John V. Heymach, Hai Tran, Runzhe Chen, Latasha Little, Shawna Hubert, Jianjun Zhang, Ziyi Li	A novel statistical method for decontaminating T-cell receptor sequencing data.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Yansen Su, Rongxin Lin, Jing Wang, Dayu Tan, Chun-Hou Zheng 0001	Denoising adaptive deep clustering with self-attention mechanism on single-cell sequencing data.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Ilias Moutsopoulos, Eleanor C. Williams, Irina Mohorianu	bulkAnalyseR: an accessible, interactive pipeline for analysing and sharing bulk multi-modal sequencing data.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Hongjia Liu, Huamei Li, Amit Sharma, Wenjuan Huang, Duo Pan, Yu Gu, Lu Lin, Xiao Sun 0006, Hongde Liu	scAnno: a deconvolution strategy-based automatic cell type annotation tool for single-cell RNA-sequencing data sets.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Connor H. Knight, Faraz Khan, Ankit Patel, Upkar S. Gill, Jessica Okosun, Jun Wang 0052	IBRAP: integrated benchmarking single-cell RNA-sequencing analytical pipeline.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Denis Beslic, Georg Tscheuschner, Bernhard Y. Renard, Michael G. Weller, Thilo Muth	Comprehensive evaluation of peptide de novo sequencing tools for monoclonal antibody assembly.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Wei Zhang 0178, Jia Ju, Yong Zhou, Teng Xiong, Mengyao Wang, Chaohui Li, Shixin Lu, Zefeng Lu, Liya Lin, Xiao Liu, Shuaicheng Li 0001	IMperm: a fast and comprehensive IMmune Paired-End Reads Merger for sequencing data.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Tao Cui, Tingting Wang	A comprehensive assessment of hurdle and zero-inflated models for single cell RNA-sequencing analysis.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Jie Hao, Jiawei Zou, Jiaqiang Zhang, Ke Chen, Duojiao Wu, Wei Cao, Guoguo Shang, Jean Yee Hwa Yang, KongFatt Wong-Lin, Hourong Sun, Zhen Zhang, Xiangdong Wang, Wantao Chen, Xin Zou	scSTAR reveals hidden heterogeneity with a real-virtual cell pair structure across conditions in single-cell RNA sequencing data.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Na Lu, Yi Qiao, Pengfei An, Jiajian Luo, Changwei Bi, Musheng Li, Zuhong Lu, Jing Tu	Exploration of whole genome amplification generated chimeric sequences in long-read sequencing data.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Siqi Gao, Hanwen Zhu, Kangwen Cai, Leiqin Liu, Zhiqiang Zhang, Yi Ding, Yaochen Xu, Xiaoqi Zheng, Jiantao Shi	TRAmHap: accurate prediction of transcriptional activity from DNA methylation haplotypes in bisulfite-sequencing data.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Jiung-Wen Chen, Lisa Shrestha, George Green, André Leier, Tatiana T. Marquez-Lago	The hitchhikers' guide to RNA sequencing and functional analysis.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Joongho Lee, Minsoo Kim, Keunsoo Kang, Chul-Su Yang, Seokhyun Yoon	Hierarchical cell-type identifier accurately distinguishes immune-cell subtypes enabling precise profiling of tissue microenvironment with single-cell RNA-sequencing.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Jingjing Wang, Werner Pieter Veldsman, Xiaodong Fang, Yufen Huang, Xuefeng Xie, Aiping Lyu, Lu Zhang 0061	Benchmarking multi-platform sequencing technologies for human genome assembly.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Alexey N. Davydov, Dmitry Bolotin, Stanislav V. Poslavsky, Dmitry M. Chudakov	Comment on 'rigorous benchmarking of T cell receptor repertoire profiling methods for cancer RNA sequencing'.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Yan Wang, Chenxu Xuan, Hanwen Wu, Bai Zhang, Tao Ding, Jie Gao	P-CSN: single-cell RNA sequencing data analysis by partial cell-specific network.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Ping Fu, Yifan Wu, Zhiyuan Zhang, Ye Qiu, Yirong Wang, Yousong Peng	VIGA: a one-stop tool for eukaryotic virus identification and genome assembly from next-generation-sequencing data.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Qi Yang, Zhaochun Xu, Wenyang Zhou, Pingping Wang, Qinghua Jiang, Liran Juan	An interpretable single-cell RNA sequencing data clustering method based on latent Dirichlet allocation.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Yu-Ning Huang, Mohammad Vahed, Kerui Peng, Houda Alachkar, Serghei Mangul	Response to 'comment on rigorous benchmarking of T cell receptor repertoire profiling methods for cancer RNA sequencing' by Davydov A.N.; Bolotin D.A.; Poslavsky S. V. and Chudakov D.M.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Zhenmiao Zhang, Chao Yang, Werner Pieter Veldsman, Xiaodong Fang, Lu Zhang 0061	Benchmarking genome assembly methods on metagenomic sequencing data.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Lei Sun, Gongming Wang, Zhihua Zhang	SimCH: simulation of single-cell RNA sequencing data by modeling cellular heterogeneity at gene expression level.	Briefings Bioinform.	2023	DBLP DOI BibTeX RDF
10	Achmad Pratama Rifai, Edi Sutoyo, Setyo Tri Windras Mara, Siti Zawiah Md Dawal	Multiobjective Sequence-Dependent Job Sequencing and Tool Switching Problem.	IEEE Syst. J.	2023	DBLP DOI BibTeX RDF
10	Yuxin Zhang, Jie Jiang, Jiongming Ma, Zhen Wei, Yue Wang 0060, Bowen Song, Jia Meng, Guifang Jia, João Pedro de Magalhães, Daniel J. Rigden, Daiyun Hang, Kunqi Chen	DirectRMDB: a database of post-transcriptional RNA modifications unveiled from direct RNA sequencing technology.	Nucleic Acids Res.	2023	DBLP DOI BibTeX RDF
10	Nathalie Bonin, Enrique Doster, Hannah Worley, Lee J. Pinnell, Jonathan E. Bravo, Peter Ferm, Simone Marini, Mattia Prosperi, Noelle R. Noyes, Paul S. Morley, Christina Boucher	MEGARes and AMR++, v3.0: an updated comprehensive database of antimicrobial resistance determinants and an improved software pipeline for classification using high-throughput sequencing.	Nucleic Acids Res.	2023	DBLP DOI BibTeX RDF
10	Yimin Wang, Yunchao Ling, Jiao Gong, Xiaohan Zhao, Hanwen Zhou, Bo Xie, Haiyi Lou, Xinhao Zhuang, Li Jin, Shaohua Fan, Guoqing Zhang 0006, Shuhua Xu	PGG.SV: a whole-genome-sequencing-based structural variant resource and data analysis platform.	Nucleic Acids Res.	2023	DBLP DOI BibTeX RDF
10	Sattam Saha, Weidong Li 0001, Zahid Usman, Nazaraf Shah	Core manufacturing ontology to model manufacturing operations and sequencing knowledge.	Serv. Oriented Comput. Appl.	2023	DBLP DOI BibTeX RDF
10	Xiang Shi, Fang Deng, Sai Lu, Yunfeng Fan, Lin Ma 0004, Jie Chen 0003	A bi-level optimization approach for joint rack sequencing and storage assignment in robotic mobile fulfillment systems.	Sci. China Inf. Sci.	2023	DBLP DOI BibTeX RDF
10	Heather Marriott, Renata Kabiljo, Ahmad Al Khleifat, Richard J. B. Dobson, Ammar Al-Chalabi, Alfredo Iacoangeli	DNAscan2: a versatile, scalable, and user-friendly analysis pipeline for human next-generation sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Shaojun Pan, Xing-Ming Zhao, Luís Pedro Coelho	SemiBin2: self-supervised contrastive learning leads to better MAGs for short- and long-read sequencing.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Ping-Han Hsieh, Camila Miranda Lopes-Ramos, Manuela Zucknick, Geir Kjetil Sandve, Kimberly Glass, Marieke L. Kuijjer	Adjustment of spurious correlations in co-expression measurements from RNA-Sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Jacob Morrison, Wanding Zhou, Benjamin K. Johnson, Hui Shen	Dupsifter: a lightweight duplicate marking tool for whole genome bisulfite sequencing.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Elisabetta C. Sciacca, Salvatore Alaimo, Gianmarco Silluzio, Alfredo Ferro, Vito Latora, Costantino Pitzalis, Alfredo Pulvirenti, Myles J. Lewis	DEGGs: an R package with shiny app for the identification of differentially expressed gene-gene interactions in high-throughput sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Marjan Hosseini, Aaron Palmer, William Manka, Patrick G. S. Grady, Venkata Patchigolla, Jinbo Bi, Rachel J. O'Neill, Zhiyi Chi, Derek Aguiar	Deep statistical modelling of nanopore sequencing translocation times reveals latent non-B DNA structures.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Hans-Ulrich Klein	demuxmix: demultiplexing oligonucleotide-barcoded single-cell RNA sequencing data with regression mixture models.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Kijin Kim, Kyungmin Park, Seonghyeon Lee, Seung-Hwan Baek, Tae-Hun Lim, Jongwoo Kim, Balachandran Manavalan, Jin-Won Song, Won-Keun Kim	VirPipe: an easy-to-use and customizable pipeline for detecting viral genomes from Nanopore sequencing.	Bioinform.	2023	DBLP DOI BibTeX RDF
10		Correction to: Benchmarking the empirical accuracy of short-read sequencing across the M. tuberculosis genome.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Marie Denoulet, Mathilde Brulé, François Anquez, Audrey Vincent, Julie Schnipper, Eric Adriaenssens, Robert-Alain Toillon, Xuefen Le Bourhis, Chann Lagadec	ABSP: an automated R tool to efficiently analyze region-specific CpG methylation from bisulfite sequencing PCR.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Dailin Gan, Jun Li 0052	SCIBER: a simple method for removing batch effects from single-cell RNA-sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Runzhou Yu, Dehan Cai, Yanni Sun	AccuVIR: an ACCUrate VIRal genome assembly tool for third-generation sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Timo Lassmann	SAMStat 2: quality control for next generation sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Matthew D. Smith 0004, Marshall A Case, Emily K. Makowski, Peter M. Tessier	Position-Specific Enrichment Ratio Matrix scores predict antibody variant properties from deep sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Hannah Schriever, Dennis Kostka	Vaeda computationally annotates doublets in single-cell RNA sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Wouter De Coster, Rosa Rademakers	NanoPack2: population-scale evaluation of long-read sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10		Correction to: Phylovar: toward scalable phylogeny-aware inference of single-nucleotide variations from single-cell DNA sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Pierre-Aurélien Gilliot, Thomas E. Gorochowski	Effective design and inference for cell sorting and sequencing based massively parallel reporter assays.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Neng Huang, Minghua Xu 0005, Fan Nie, Peng Ni, Chuan-Le Xiao, Feng Luo, Jianxin Wang 0001	NanoSNP: a progressive and haplotype-aware SNP caller on low-coverage nanopore sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Timofey Prodanov, Vikas Bansal 0001	A multilocus approach for accurate variant calling in low-copy repeats using whole-genome sequencing.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Jack R. Leary, Yi Xu, Ashley B. Morrison, Chong Jin, Emily C. Shen, Peyton C. Kuhlers, Ye Su, Naim U. Rashid, Jen Jen Yeh, Xianlu Laura Peng	Sub-Cluster Identification through Semi-Supervised Optimization of Rare-Cell Silhouettes (SCISSORS) in single-cell RNA-sequencing.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Junhang Pan, Xiangchen Li, Mingwu Zhang, Yewei Lu, Yelei Zhu, Kunyang Wu, Yiwen Wu, Weixin Wang, Bin Chen, Zhengwei Liu, Xiaomeng Wang, Junshun Gao	TransFlow: a Snakemake workflow for transmission analysis ofMycobacterium tuberculosiswhole-genome sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Ali Osman Berk Sapci, Shan Lu, Shuchen Yan, Ferhat Ay, Öznur Tastan, Sündüz Keles	MuDCoD: multi-subject community detection in personalized dynamic gene networks from single-cell RNA sequencing.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Sébastien Guizard, Katarzyna Miedzinska, Jacqueline Smith, Jonathan Smith, Richard I. Kuo, Megan Davey, Alan L. Archibald, Mick Watson	nf-core/isoseq: simple gene and isoform annotation with PacBio Iso-Seq long-read sequencing.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Wenyi Yang, Pingping Wang, Meng Luo 0001, Yideng Cai, Chang Xu, Guangfu Xue, Xiyun Jin, Rui Cheng 0003, Jinhao Que, Fenglan Pang, Yuexin Yang, Huan Nie, Qinghua Jiang, Zhigang Liu, Zhaochun Xu	DeepCCI: a deep learning framework for identifying cell-cell interactions from single-cell RNA sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Chen Li, Xiaoyang Chen, Shengquan Chen, Rui Jiang, Xuegong Zhang	simCAS: an embedding-based method for simulating single-cell chromatin accessibility sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF
10	Rasmus Amund Henriksen, Lei Zhao, Thorfinn Sand Korneliussen	NGSNGS: next-generation simulator for next-generation sequencing data.	Bioinform.	2023	DBLP DOI BibTeX RDF