nature.com

Sitemap

  • Log In
  • Register

Methagora

a blog from Nature Methods

Advanced search
  • Nature Methods
  • Blog
  • Archive by Tag

Archive by tag | data

Newer entriesOlder entries

30 Jan 2014 | 10:31 AM

Bring on the box plots

Posted by Daniel Evanko | Categories: Nature Methods papers, Statistics, Visualization

Sample BoxPlotR plots. Top: Simple Tukey style plot. Bottom: Tukey style plot with notches, means and 83% confidence intervals and n values.

Box plots are excellent for visualizing important core statistics of sample data. We hope that a new online plotting tool BoxPlotR will help encourage their wider use in basic biological research.  Read more

Tags:

  • data
  • data visualization
  • graphs
  • publishing
  • statistics

Article tools

  • add a comment
  • Email
  • Share/bookmark

    • Facebook
    • Twitter
    • Delicious
    • Digg
    • Google+
    • LinkedIn
    • Reddit
    • StumbleUpon

09 Sep 2013 | 2:09 AM

A retraction resulting from cell line contamination

Posted by Daniel Evanko | Categories: General Interest, Journal Policy, Nature Methods papers

Two-photon fluorescence image of live primary gliomasphere from retracted manuscript.

After nine years in print, Nature Methods today published its first retraction; one that could have been prevented by cell line authentication. What does this mean for journal-mandated cell line testing?  Read more

Tags:

  • cell line authentication
  • data
  • reproducibility
  • retraction

Article tools

  • 5 Comments
  • Email
  • Share/bookmark

    • Facebook
    • Twitter
    • Delicious
    • Digg
    • Google+
    • LinkedIn
    • Reddit
    • StumbleUpon

29 Aug 2013 | 9:14 AM

Let’s give statistics the attention it deserves

Posted by Daniel Evanko | Categories: Featured, General Interest, Journal happenings, Statistics

A population distribution and a distribution of sample means.

This month we launch a new column ‘Points of Significance’ devoted to statistics, a topic of profound importance for biological research, but one that often doesn’t receive the attention it deserves.  Read more

Tags:

  • analysis
  • data
  • points of significance
  • points of view
  • statistics

Article tools

  • 4 Comments
  • Email
  • Share/bookmark

    • Facebook
    • Twitter
    • Delicious
    • Digg
    • Google+
    • LinkedIn
    • Reddit
    • StumbleUpon

30 Jul 2013 | 10:00 AM

Importance of data sharing

Posted by Nicole Rusk | Categories: Editorials, General Interest, Genetics & Genomics

No more (trade) secrets  … Read more

Tags:

  • data
  • genetic testing

Article tools

  • add a comment
  • Email
  • Share/bookmark

    • Facebook
    • Twitter
    • Delicious
    • Digg
    • Google+
    • LinkedIn
    • Reddit
    • StumbleUpon

30 Jul 2013 | 8:08 AM

Data visualization: A view of every Points of View column

Posted by Daniel Evanko | Categories: Featured, Visualization

Data visualization: A view of every Points of View column

We have organized all the Points of View columns on data visualization published in Nature Methods and provide this as a guide to accessing this trove of practical advice on visualizing scientific data.  Read more

Tags:

  • data
  • data visualization
  • points of view
  • visualization

Article tools

  • add a comment
  • Email
  • Share/bookmark

    • Facebook
    • Twitter
    • Delicious
    • Digg
    • Google+
    • LinkedIn
    • Reddit
    • StumbleUpon

26 Feb 2013 | 11:57 AM

Return of the Points of View column

Posted by Daniel Evanko | Categories: General Interest, Journal happenings, Visualization

Martin Krzywinski

Our popular “Points of View” column returns this month after a brief hiatus. Here is a bit of history of the column and an introduction to its new author.  Read more

Tags:

  • data
  • points of view
  • visualization

Article tools

  • add a comment
  • Email
  • Share/bookmark

    • Facebook
    • Twitter
    • Delicious
    • Digg
    • Google+
    • LinkedIn
    • Reddit
    • StumbleUpon

05 Jun 2012 | 5:46 PM

New video functionality in online manuscripts

Posted by Daniel Evanko | Categories: Journal happenings, Microscopy & Imaging

Data in research papers that is best presented in the form of videos gets short shrift compared to data that can be easily presented in figures and tables. Printing of representative video frames is a poor surrogate. Embedding videos in PDFs is possible but rare. Even online, where embedding videos in an HTML page is technologically easy, videos are usually provided only as links in the supplementary information for downloading video files.  Read more

Tags:

  • data
  • video

Article tools

  • add a comment
  • Email
  • Share/bookmark

    • Facebook
    • Twitter
    • Delicious
    • Digg
    • Google+
    • LinkedIn
    • Reddit
    • StumbleUpon

27 Apr 2012 | 1:04 PM

To share or not to share

Posted by Nicole Rusk | Categories: Editorials, Mass spectrometry, Proteomics

Many in the mass spectrometry community agree that MS data should be made publicly available for everybody’s benefit. All data, including the raw files generated by the mass spectrometers.  Read more

Tags:

  • data
  • data sharing

Article tools

  • 1 Comment
  • Email
  • Share/bookmark

    • Facebook
    • Twitter
    • Delicious
    • Digg
    • Google+
    • LinkedIn
    • Reddit
    • StumbleUpon

28 Oct 2011 | 11:00 AM

Where’s your ground truth?

Posted by Daniel Evanko | Categories: Computational, Editorials, Microscopy & Imaging

When using or developing experimental and observational methods it is crucial to assess the method performance in an effort to ensure that the information it provides reflects reality. For experimental biologists this often means conducting carefully chosen control experiments with alternative methods or different experimental settings. More rigorous assessment, particularly for high-throughput or large-scale methods, often requires the use of ‘ground truth’ or ‘gold standard’ data sets. But talk to different people and you will get different answers regarding what ‘ground truth’ or ‘gold standard’ data is. This often includes a nice historical explanation of where the term ‘ground truth’ comes from.  Read more

Tags:

  • analysis
  • data
  • method development
  • software

Article tools

  • add a comment
  • Email
  • Share/bookmark

    • Facebook
    • Twitter
    • Delicious
    • Digg
    • Google+
    • LinkedIn
    • Reddit
    • StumbleUpon

30 Jun 2010 | 12:13 PM

Cloud computing in biology

Posted by Natalie de Souza | Categories: Computational, Editorials

The sheer amount of data being generated in large-scale high-throughput biological studies is challenging current capabilities for data storage and analysis. One solution to this has been to move to cloud computing. In our editorial this month we discuss current efforts in this direction and the particular challenges of biological analysis in the cloud.  Read more

Tags:

  • cloud computing
  • data

Article tools

  • add a comment
  • Email
  • Share/bookmark

    • Facebook
    • Twitter
    • Delicious
    • Digg
    • Google+
    • LinkedIn
    • Reddit
    • StumbleUpon
Newer entriesOlder entries

Current issue

April 2016, Volume 13 No 4
  • Journal home
  • About
  • Current issue
  • Subscribe
  • Recommend to library
  • E-alert
  • RSS
  • Twitter
nature.com blogs home

Featured posts from this blog

  • Cell Biology, Editorials, Featured, Genetics & Genomics, Method of the Year

    Method of the Year 2016

    • add a comment
  • Editorials, Featured, General Interest, Journal happenings, Nature Methods papers

    Ten years of Methods

    • add a comment
  • Computational, Editorials, Featured, Journal Policy

    Guidelines for algorithms and software in Nature Methods

    • 2 Comments
  • Featured, General Interest, Journal Policy

    The dos and don’ts of communicating with editors and reviewers

    • add a comment
  • Featured, General Interest, Journal happenings, Statistics

    Let’s give statistics the attention it deserves

    • 4 Comments

View more

Recent comments on this blog

  • Yes, this is a much needed effort…to sensitize and empower the community to the essentials and rigors of statistics in… ... Read more
    -- Chandan Kumar

    Let’s give statistics the attention it deserves

  • I want to applaud Nature for helping emphasise that sound inference from observation is a cornerstone of science. Having worked… ... Read more
    -- David Lovell

    Let’s give statistics the attention it deserves

  • I agree with Michael Hoffman. MATLAB is not free software and not everyone has it installed. We don’t and… ... Read more
    -- Mikhail Spivakov

    Guidelines for algorithms and software in Nature Methods

Categories

Bioinformatics (9)
Biophysics (5)
Biotechnology (2)
Cell Biology (5)
Chemistry (3)
Computational (18)
Editorials (57)
Featured (6)
Funding (7)
General Interest (53)
Genetics & Genomics (11)
Guest Post (3)
Journal happenings (23)
Journal Policy (18)
Mass spectrometry (6)
Meeting Reports (4)
Metagenomics (2)
Method of the Year (6)
Microscopy & Imaging (17)
Model Organisms (4)
Nature Methods papers (37)
Neuroscience (14)
Proteomics (13)
Resources (1)
Sequencing (9)
Statistics (4)
Stem Cells (2)
Structural Biology (2)
Synthetic Biology (1)
This and That (11)
Visualization (4)
Webcasts (2)

Top tags in this blog

  • method development
  • data
  • software
  • brain
  • science funding
  • publishing
  • NIH
  • peer review
  • analysis
  • optogenetics

Blog Archive

  • A view From the BridgeA view From the Bridge
  • Action PotentialAction Potential
  • Flat Chat Flat Chat
  • Free AssociationFree Association
  • House of WisdomHouse of Wisdom
  • IndigenusIndigenus
  • MethagoraMethagora
  • Nature Future ConditionalNature Future Conditional
  • nature.com blogsnature.com blogs
  • Naturejobs BlogNaturejobs Blog
  • Of Schemes and Memes BlogOf Schemes and Memes Blog
  • On your wavelengthOn your wavelength
  • Plant LifePlant Life
  • Scientific DataScientific Data
  • Soapbox ScienceSoapbox Science
  • Spoonful of MedicineSpoonful of Medicine
  • StepwiseStepwise
  • The Sceptical ChymistThe Sceptical Chymist
  • Trade SecretsTrade Secrets
  • About us
  • Contact us
  • Accessibility statement
  • Help
  • Privacy policy
  • Use of cookies
  • Legal notice
  • Terms
  • Nature jobs
  • Nature Asia
  • Nature Education
  • RSS web feeds
Advanced search

© 2021 Springer Nature Limited. All Rights Reserved. partner of AGORA, HINARI, OARE, INASP, ORCID, CrossRef and COUNTER