freeCount: A Coding Free Framework for Guided Count Data Visualization and Analysis

被引：0
|
作者：
Brooks, Elizabeth M. [1 ]
Sanders, Sheri A. [1 ]
Pfrender, Michael E. [1 ]
机构：
[1] Univ Notre Dame, Notre Dame, IN 46556 USA
来源：
PRACTICE AND EXPERIENCE IN ADVANCED RESEARCH COMPUTING 2024, PEARC 2024 | 2024年
基金：
美国国家科学基金会;
关键词：
R Shiny; Interactive Interfaces; Analysis Framework; Genomics; Transcriptomics; Metagenomics;
D O I：
10.1145/3626203.3670605
中图分类号：
TP3 [计算技术、计算机技术];
学科分类号：
0812 ;
摘要：
The analysis and interpretation of high-dimensional biological data sets is a challenging task. Exploratory data analysis of count data produced by next-generation sequencing technologies presents a common hurdle to researchers. Biologists often find it difficult to get started with the analysis process, which can be time consuming and repetitive. With the freeCount analysis framework students and researchers are guided through the iterative steps of data assessment, processing, and analysis in a visual environment. The freeCount analysis framework takes advantage of the reactive features of R Shiny to deliver a set of modular and interactive tools and tutorials for the structured analysis and visualization of count data.
引用
收藏
页数：4
相关论文
共 50 条
  • [31] A Computational Framework for Railway Incident Analysis: from Data Mining to Data Visualization Completed Research
    Viademonte, Sergio
    de Souza, Cleidson
    Carneiro, Nikolas
    Ferreira Junior, Jair
    Lyra, Wallace
    AMCIS 2018 PROCEEDINGS, 2018,
  • [32] Significance Analysis of Spectral Count Data in Label-free Shotgun Proteomics
    Choi, Hyungwon
    Fermin, Damian
    Nesvizhskii, Alexey I.
    MOLECULAR & CELLULAR PROTEOMICS, 2008, 7 (12) : 2373 - 2385
  • [33] DC-free error control coding through guided convolutional coding
    Fair, IJ
    Bull, DR
    ISIT: 2002 IEEE INTERNATIONAL SYMPOSIUM ON INFORMATION THEORY, PROCEEDINGS, 2002, : 297 - 297
  • [34] ROOT - A C++ framework for petabyte data storage, statistical analysis and visualization
    Antcheva, I.
    Ballintijn, M.
    Bellenot, B.
    Biskup, M.
    Brun, R.
    Buncic, N.
    Canal, Ph
    Casadei, D.
    Couet, O.
    Fine, V.
    Franco, L.
    Ganis, G.
    Gheata, A.
    Maline, D. Gonzalez
    Goto, M.
    Iwaszkiewicz, J.
    Kreshuk, A.
    Segura, D. Marcos
    Maunder, R.
    Moneta, L.
    Naumann, A.
    Offermann, E.
    Onuchin, V.
    Panacek, S.
    Rademakers, F.
    Russo, P.
    Tadel, M.
    COMPUTER PHYSICS COMMUNICATIONS, 2011, 182 (06) : 1384 - 1385
  • [35] Characterizing Provenance in Visualization and Data Analysis: An Organizational Framework of Provenance Types and Purposes
    Ragan, Eric D.
    Endert, Alex
    Sanyal, Jibonananda
    Chen, Jian
    IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS, 2016, 22 (01) : 31 - 40
  • [36] ROOT - A C++ framework for petabyte data storage, statistical analysis and visualization
    Antcheva, I.
    Ballintijn, M.
    Bellenot, B.
    Biskup, M.
    Brun, R.
    Buncic, N.
    Canal, Ph.
    Casadei, D.
    Couet, O.
    Fine, V.
    Franco, L.
    Ganis, G.
    Gheata, A.
    Maline, D. Gonzalez
    Goto, M.
    Iwaszkiewicz, J.
    Kreshuk, A.
    Segura, D. Marcos
    Maunder, R.
    Moneta, L.
    Naumann, A.
    Offermann, E.
    Onuchin, V.
    Panacek, S.
    Rademakers, F.
    Russo, R.
    Tadel, M.
    COMPUTER PHYSICS COMMUNICATIONS, 2009, 180 (12) : 2499 - 2512
  • [37] Data analysis and visualization framework in the manufacturing decision support system of COMPOSITION project
    Vafeiadis, T.
    Kalatzis, D.
    Nizamis, A.
    Ioannidis, D.
    Apostolou, K.
    Metaxa, I. N.
    Charisi, V.
    Beecks, C.
    Insolvibile, G.
    Pardi, M.
    Vergori, P.
    Tzovaras, D.
    7TH INTERNATIONAL CONFERENCE ON CHANGEABLE, AGILE, RECONFIGURABLE AND VIRTUAL PRODUCTION (CARV2018), 2019, 28 : 57 - 62
  • [38] MOSCA 2.0: A bioinformatics framework for metagenomics, metatranscriptomics and metaproteomics data analysis and visualization
    Sequeira, Joao C.
    Pereira, Vitor
    Alves, M. Madalena
    Pereira, M. Alcina
    Rocha, Miguel
    Salvador, Andreia F.
    MOLECULAR ECOLOGY RESOURCES, 2024, 24 (07)
  • [39] A framework for XML-based integration of data, visualization and analysis in a biomedical domain
    Bales, N
    Brinkley, J
    Lee, ES
    Mathur, S
    Re, C
    Suciu, D
    DATABASE AND XML TECHNOLOGIES, PROCEEDINGS, 2005, 3671 : 207 - 221
  • [40] Multiple-species analysis of point count data: a more parsimonious modelling framework
    Alldredge, Mathew W.
    Pollock, Kenneth H.
    Simons, Theodore R.
    Shriner, Susan A.
    JOURNAL OF APPLIED ECOLOGY, 2007, 44 (02) : 281 - 290
12345