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121-131 of 131 ARTICLES
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https://doi.org/10.12688/f1000research.7563.2
Method Article metrics
Revised
Differential analyses for RNA-seq: transcript-level estimates improve gene-level inferences
[version 2; peer review: 2 approved]
Charlotte Soneson, Michael I. Love, Mark D. Robinson
Peer Reviewers Stephen N. Floor; Rob Patro
LATEST VERSION PUBLISHED 29 Feb 2016
https://doi.org/10.12688/f1000research.7453.1
Software Tool Article metrics
Crambled: A Shiny application to enable intuitive resolution of conflicting cellularity estimates
[version 1; peer review: 2 approved]
Andy G. Lynch
Peer Reviewers Jan Oosting; Ingrid Lönnstedt
PUBLISHED 07 Dec 2015
https://doi.org/10.12688/f1000research.6030.2
Software Tool Article metrics
Revised
AGA: Interactive pipeline for reproducible gene expression and DNA methylation data analyses
[version 2; peer review: 2 approved]
Michael Considine, Hilary Parker, Yingying Wei, Xaio Xia, Leslie Cope, Michael Ochs, Elana Fertig
Peer Reviewers Subha Madhavan; Matthew McCall
LATEST VERSION PUBLISHED 21 Oct 2015
https://doi.org/10.12688/f1000research.6925.1
Software Tool Article metrics
GOsummaries: an R Package for Visual Functional Annotation of Experimental Data
[version 1; peer review: 2 approved]
Raivo Kolde, Jaak Vilo
Peer Reviewers Shaillay Dogra; Hilary Ann Coller
PUBLISHED 18 Aug 2015
https://doi.org/10.12688/f1000research.3928.2
Software Tool Article metrics
Update
edgeR: a versatile tool for the analysis of shRNA-seq and CRISPR-Cas9 genetic screens
[version 2; peer review: 3 approved]
Zhiyin Dai, Julie M. Sheridan, Linden J. Gearing, Darcy L. Moore, Shian Su, Sam Wormald, Stephen Wilcox, Liam O'Connor, Ross A. Dickins, Marnie E. Blewitt, Matthew E. Ritchie
Peer Reviewers James W. MacDonald; Ross Lazarus; Sumit Deswal
LATEST VERSION PUBLISHED 21 Oct 2014
https://doi.org/10.12688/f1000research.4680.2
Software Tool Article metrics
Revised
shinyMethyl: interactive quality control of Illumina 450k DNA methylation arrays in R
[version 2; peer review: 2 approved]
Jean-Philippe Fortin, Elana Fertig, Kasper Hansen
Peer Reviewers Timothy J. Triche; Tiffany J. Morris
LATEST VERSION PUBLISHED 19 Sep 2014
https://doi.org/10.12688/f1000research.4831.1
Software Tool Article metrics
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.4784.1
Software Tool Article metrics
dendsort: modular leaf ordering methods for dendrogram representations in R
[version 1; peer review: 2 approved]
Ryo Sakai, Raf Winand, Toni Verbeiren, Andrew Vande Moere, Jan Aerts
Peer Reviewers Eamonn Maguire and Rodrigo Santamaria; Jan Oosting
PUBLISHED 30 Jul 2014
https://doi.org/10.12688/f1000research.2-192.v2
Software Tool Article metrics
Revised
Cyrface: An interface from Cytoscape to R that provides a user interface to R packages
[version 2; peer review: 3 approved]
Emanuel Gonçalves, Franz Mirlach, Julio Saez-Rodriguez
Peer Reviewers Nikolaus Schultz and B. Arman Aksoy; Ghislain Bidaut; Paul T. Shannon
LATEST VERSION PUBLISHED 01 Jul 2014
https://doi.org/10.12688/f1000research.2-264.v1
Software Tool Article metrics
illuminaio: An open source IDAT parsing tool for Illumina microarrays
[version 1; peer review: 2 approved]
Mike L Smith, Keith A. Baggerly, Henrik Bengtsson, Matthew E. Ritchie, Kasper D. Hansen
Peer Reviewers Jan Oosting; Tiffany J. Morris
PUBLISHED 04 Dec 2013
https://doi.org/10.12688/f1000research.2-191.v2
Web Tool metrics
taxize: taxonomic search and retrieval in R
[version 2; peer review: 3 approved]
Scott A. Chamberlain, Eduard Szöcs
Peer Reviewers Will Pearse; Gavin L. Simpson; Ethan White
LATEST VERSION PUBLISHED 28 Oct 2013
121-131 of 131 ARTICLES
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