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https://doi.org/10.12688/f1000research.4492.2
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Revised
Cytoscape: the network visualization tool for GenomeSpace workflows
[version 2; peer review: 3 approved]
Barry Demchak, Tim Hull, Michael Reich, Ted Liefeld, Michael Smoot, Trey Ideker, Jill P. Mesirov
Peer Reviewers Aris Floratos; Gabriela Bindea and Bernhard Mlecnik; Jan Aerts
LATEST VERSION PUBLISHED 26 Aug 2014
https://doi.org/10.12688/f1000research.4702.1
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EpiCollect+: linking smartphones to web applications for complex data collection projects
[version 1; peer review: 2 approved]
David M. Aanensen, Derek M. Huntley, Mirko Menegazzo, Chris I. Powell, Brian G. Spratt
Peer Reviewers Daniel Lombraña González; Jason E. Stajich
PUBLISHED 20 Aug 2014
https://doi.org/10.12688/f1000research.4831.1
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FALCON: a software package for analysis of nestedness in bipartite networks
[version 1; peer review: 2 approved]
Stephen J. Beckett, Chris A. Boulton, Hywel T. P. Williams
Peer Reviewers C. Patrick Doncaster; Justin R. Meyer
PUBLISHED 06 Aug 2014
https://doi.org/10.12688/f1000research.3681.2
Method Article metrics
Revised
Developing sustainable software solutions for bioinformatics by the “Butterfly” paradigm
[version 2; peer review: 2 approved]
Zeeshan Ahmed, Saman Zeeshan, Thomas Dandekar
Peer Reviewers Paul Vauterin; Wolfgang Mueller
LATEST VERSION PUBLISHED 01 Aug 2014
https://doi.org/10.12688/f1000research.4521.1
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BridgeDb app: unifying identifier mapping services for Cytoscape
[version 1; peer review: 2 approved]
Jianjiong Gao, Chao Zhang, Martijn van Iersel, Li Zhang, Dong Xu, Nikolaus Schultz, Alexander R. Pico
Peer Reviewers Benno Schwikowski; Olivier Elemento
PUBLISHED 01 Jul 2014
https://doi.org/10.12688/f1000research.4460.1
Software Tool Article metrics
enhancedGraphics: a Cytoscape app for enhanced node graphics
[version 1; peer review: 2 approved]
John H. Morris, Allan Kuchinsky, Thomas E. Ferrin, Alexander R. Pico
Peer Reviewers Lars Juhl Jensen; Piet Molenaar
PUBLISHED 01 Jul 2014
https://doi.org/10.12688/f1000research.3978.2
Opinion Article metrics
Revised
Computational science: shifting the focus from tools to models
[version 2; peer review: 2 approved]
Konrad Hinsen
Peer Reviewers David Hestenes; Patrik Jansson and Cezar Ionescu
LATEST VERSION PUBLISHED 17 Jun 2014
https://doi.org/10.12688/f1000research.3-18.v2
Research Article metrics
Revised
Mutation extraction tools can be combined for robust recognition of genetic variants in the literature
[version 2; peer review: 2 approved, 1 approved with reservations]
Antonio Jimeno Yepes, Karin Verspoor
Peer Reviewers Philippe Thomas; Max Haeussler; Cecilia N. Arighi
LATEST VERSION PUBLISHED 10 Jun 2014
https://doi.org/10.12688/f1000research.3216.1
Review metrics
An analysis on the entity annotations in biological corpora
[version 1; peer review: 2 approved]
Mariana Neves
Peer Reviewers Roman Klinger; Paloma Martínez
PUBLISHED 25 Apr 2014
https://doi.org/10.12688/f1000research.2-125.v2
Method Article metrics
Revised
A novel variable delay Go/No-Go task to study attention, motivation and working memory in the head-fixed rodent
[version 2; peer review: 2 approved]
Samuel D Dolzani, Shinya Nakamura, Donald C Cooper
Peer Reviewers Kenichiro Tsutsui; Jeff Dalley
LATEST VERSION PUBLISHED 19 Mar 2014
https://doi.org/10.12688/f1000research.2-248.v2
Web Tool metrics
Revised
StatsDB: platform-agnostic storage and understanding of next generation sequencing run metrics
[version 2; peer review: 3 approved]
Ricardo H. Ramirez-Gonzalez, Richard M. Leggett, Darren Waite, Anil Thanki, Nizar Drou, Mario Caccamo, Robert Davey
Peer Reviewers Mick Watson; Cyriac Kandoth; Anuj Kumar
LATEST VERSION PUBLISHED 19 Feb 2014
https://doi.org/10.12688/f1000research.3-55.v1
Commentary metrics
BioJS: an open source standard for biological visualisation – its status in 2014
[version 1; peer review: 2 approved]
Manuel Corpas, Rafael Jimenez, Seth J Carbon, Alex García, Leyla Garcia, Tatyana Goldberg, John Gomez, Alexis Kalderimis, Suzanna E Lewis, Ian Mulvany, Aleksandra Pawlik, Francis Rowland, Gustavo Salazar, Fabian Schreiber, Ian Sillitoe, William H Spooner, Anil S. Thanki, José M Villaveces, Guy Yachdav, Henning Hermjakob
Peer Reviewers Philip E. Bourne; Reinhard Schneider
PUBLISHED 13 Feb 2014
https://doi.org/10.12688/f1000research.3-52.v1
Web Tool metrics
Sequence, a BioJS component for visualising sequences
[version 1; peer review: 2 approved]
John Gomez, Rafael Jimenez
Peer Reviewers Christoph Gille; Jeremy Goecks
PUBLISHED 13 Feb 2014
https://doi.org/10.12688/f1000research.3-51.v1
Web Tool metrics
BioJS DAGViewer: A reusable JavaScript component for displaying directed graphs
[version 1; peer review: 2 approved]
Alexis Kalderimis, Radek Stepan, Julie Sullivan, Rachel Lyne, Michael Lyne, Gos Micklem
Peer Reviewers Tom C. Freeman and Derek Wright; Lynn Fink
PUBLISHED 13 Feb 2014
https://doi.org/10.12688/f1000research.3-50.v1
Software Tool Article metrics
PPI layouts: BioJS components for the display of Protein-Protein Interactions
[version 1; peer review: 2 approved]
Gustavo A. Salazar, Ayton Meintjes, Nicola Mulder
Peer Reviewers Laurent Gatto; Hagen Blankenburg
PUBLISHED 13 Feb 2014
https://doi.org/10.12688/f1000research.3-48.v1
Web Tool metrics
HeatMapViewer: interactive display of 2D data in biology
[version 1; peer review: 2 approved]
Guy Yachdav, Maximilian Hecht, Metsada Pasmanik-Chor, Adva Yeheskel, Burkhard Rost
Peer Reviewers Jordi Deu-Pons; Jon C. Ison
PUBLISHED 13 Feb 2014
https://doi.org/10.12688/f1000research.3-46.v1
Web Tool metrics
BioJS InterMineTable Component: A BioJS component for displaying data from InterMine compatible webservice endpoints
[version 1; peer review: 1 approved]
Alexis Kalderimis, Radek Stepan, Julie Sullivan, Rachel Lyne, Michael Lyne, Gos Micklem
Peer Reviewers Arnaud Ceol
PUBLISHED 13 Feb 2014
https://doi.org/10.12688/f1000research.3-45.v1
Web Tool metrics
BioJS InterMine List Analysis: A BioJS component for displaying graphical or statistical analysis of collections of items from InterMine endpoints
[version 1; peer review: 1 approved]
Alexis Kalderimis, Radek Stepan, Julie Sullivan, Rachel Lyne, Michael Lyne, Gos Micklem
Peer Reviewers Clemens Wrzodek
PUBLISHED 13 Feb 2014
https://doi.org/10.12688/f1000research.2-227.v3
Web Tool metrics
Revised
ANGDelMut – a web-based tool for predicting and analyzing functional loss mechanisms of amyotrophic lateral sclerosis-associated angiogenin mutations
[version 3; peer review: 2 approved, 1 approved with reservations]
Aditya K Padhi, Suhas V Vasaikar, Bhyravabhotla Jayaram, James Gomes
Peer Reviewers Ammar Al-Chalabi; Rafael Najmanovich; Emanuele Buratti
LATEST VERSION PUBLISHED 10 Feb 2014
https://doi.org/10.12688/f1000research.3-19.v1
Web Tool metrics
Visualizing and quantifying movement from pre-recorded videos: The spectral time-lapse (STL) algorithm
[version 1; peer review: 2 approved]
Christopher R. Madan, Marcia L Spetch
Peer Reviewers Suzette Astley; Michael Mangan
PUBLISHED 21 Jan 2014
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