Granatum: a graphical single-cell RNA-Seq analysis pipeline for genomics scientists

被引:0
|
作者
Xun Zhu
Thomas K. Wolfgruber
Austin Tasato
Cédric Arisdakessian
David G. Garmire
Lana X. Garmire
机构
[1] University of Hawaii at Manoa,Graduate Program in Molecular Biology and Bioengineering
[2] University of Hawaii Cancer Center,Epidemiology Program
[3] University of Hawaii at Manoa,Department of Electrical Engineering
来源
关键词
Single-cell; Gene expression; Graphical; Normalization; Clustering; Imputation; Differential expression; Pathway; Pseudo-time; Software;
D O I
暂无
中图分类号
学科分类号
摘要
引用
收藏
相关论文
共 50 条
  • [1] Granatum: a graphical single-cell RNA-Seq analysis pipeline for genomics scientists
    Zhu, Xun
    Wolfgruber, Thomas K.
    Tasato, Austin
    Arisdakessian, Cedric
    Garmire, David G.
    Garmire, Lana X.
    GENOME MEDICINE, 2017, 9
  • [2] SINCERA: A Pipeline for Single-Cell RNA-Seq Profiling Analysis
    Guo, Minzhe
    Wang, Hui
    Potter, S. Steven
    Whitsett, Jeffrey A.
    Xu, Yan
    PLOS COMPUTATIONAL BIOLOGY, 2015, 11 (11)
  • [3] scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data
    Ji-Hye Choi
    Hye In Kim
    Hyun Goo Woo
    BMC Bioinformatics, 21
  • [4] scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data
    Choi, Ji-Hye
    In Kim, Hye
    Woo, Hyun Goo
    BMC BIOINFORMATICS, 2020, 21 (01)
  • [5] bollito: a flexible pipeline for comprehensive single-cell RNA-seq analyses
    Garcia-Jimeno, Luis
    Fustero-Torre, Coral
    Jose Jimenez-Santos, Maria
    Gomez-Lopez, Gonzalo
    Di Domenico, Tomas
    Al-Shahrour, Fatima
    BIOINFORMATICS, 2022, 38 (04) : 1155 - 1156
  • [6] A multiplex single-cell RNA-Seq pharmacotranscriptomics pipeline for drug discovery
    Dini, Alice
    Barker, Harlan
    Piki, Emilia
    Sharma, Subodh
    Raivola, Juuli
    Murumagi, Astrid
    Ungureanu, Daniela
    NATURE CHEMICAL BIOLOGY, 2025, 21 (03) : 432 - 442
  • [7] Practical Compass of Single-Cell RNA-Seq Analysis
    Okada, Hiroyuki
    Chung, Ung-il
    Hojo, Hironori
    CURRENT OSTEOPOROSIS REPORTS, 2024, 22 (05) : 433 - 440
  • [8] Embracing the dropouts in single-cell RNA-seq analysis
    Peng Qiu
    Nature Communications, 11
  • [9] SINGLE-CELL ANALYSIS From single-cell RNA-seq to transcriptional regulation
    La Manno, Gioele
    NATURE BIOTECHNOLOGY, 2019, 37 (12) : 1421 - 1422
  • [10] Embracing the dropouts in single-cell RNA-seq analysis
    Qiu, Peng
    NATURE COMMUNICATIONS, 2020, 11 (01)