Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 118

1.

clusterProfiler: an R package for comparing biological themes among gene clusters.

Yu G, Wang LG, Han Y, He QY.

OMICS. 2012 May;16(5):284-7. doi: 10.1089/omi.2011.0118. Epub 2012 Mar 28.

2.

DOSE: an R/Bioconductor package for disease ontology semantic and enrichment analysis.

Yu G, Wang LG, Yan GR, He QY.

Bioinformatics. 2015 Feb 15;31(4):608-9. doi: 10.1093/bioinformatics/btu684. Epub 2014 Oct 17.

PMID:
25677125
3.

sapFinder: an R/Bioconductor package for detection of variant peptides in shotgun proteomics experiments.

Wen B, Xu S, Sheynkman GM, Feng Q, Lin L, Wang Q, Xu X, Wang J, Liu S.

Bioinformatics. 2014 Nov 1;30(21):3136-8. doi: 10.1093/bioinformatics/btu397. Epub 2014 Jul 22.

4.

mAPKL: R/ Bioconductor package for detecting gene exemplars and revealing their characteristics.

Sakellariou A, Spyrou G.

BMC Bioinformatics. 2015 Sep 15;16:291. doi: 10.1186/s12859-015-0719-5.

5.

GeneExpressionSignature: an R package for discovering functional connections using gene expression signatures.

Li F, Cao Y, Han L, Cui X, Xie D, Wang S, Bo X.

OMICS. 2013 Feb;17(2):116-8. doi: 10.1089/omi.2012.0087.

PMID:
23374109
6.

oneChannelGUI: a graphical interface to Bioconductor tools, designed for life scientists who are not familiar with R language.

Sanges R, Cordero F, Calogero RA.

Bioinformatics. 2007 Dec 15;23(24):3406-8. Epub 2007 Sep 17.

PMID:
17875544
7.

VariantAnnotation: a Bioconductor package for exploration and annotation of genetic variants.

Obenchain V, Lawrence M, Carey V, Gogarten S, Shannon P, Morgan M.

Bioinformatics. 2014 Jul 15;30(14):2076-8. doi: 10.1093/bioinformatics/btu168. Epub 2014 Mar 28.

8.

chimeraviz: A tool for visualizing chimeric RNA.

Lågstad S, Zhao S, Hoff AM, Johannessen B, Christian Lingjærde O, Skotheim RI.

Bioinformatics. 2017 May 19. doi: 10.1093/bioinformatics/btx329. [Epub ahead of print]

PMID:
28525538
9.

RamiGO: an R/Bioconductor package providing an AmiGO visualize interface.

Schröder MS, Gusenleitner D, Quackenbush J, Culhane AC, Haibe-Kains B.

Bioinformatics. 2013 Mar 1;29(5):666-8. doi: 10.1093/bioinformatics/bts708. Epub 2013 Jan 6.

10.

ClassifyR: an R package for performance assessment of classification with applications to transcriptomics.

Strbenac D, Mann GJ, Ormerod JT, Yang JY.

Bioinformatics. 2015 Jun 1;31(11):1851-3. doi: 10.1093/bioinformatics/btv066. Epub 2015 Feb 1.

PMID:
25644269
11.

GOSemSim: an R package for measuring semantic similarity among GO terms and gene products.

Yu G, Li F, Qin Y, Bo X, Wu Y, Wang S.

Bioinformatics. 2010 Apr 1;26(7):976-8. doi: 10.1093/bioinformatics/btq064. Epub 2010 Feb 23.

PMID:
20179076
12.

ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization.

Yu G, Wang LG, He QY.

Bioinformatics. 2015 Jul 15;31(14):2382-3. doi: 10.1093/bioinformatics/btv145. Epub 2015 Mar 11.

PMID:
25765347
13.

SeqGSEA: a Bioconductor package for gene set enrichment analysis of RNA-Seq data integrating differential expression and splicing.

Wang X, Cairns MJ.

Bioinformatics. 2014 Jun 15;30(12):1777-9. doi: 10.1093/bioinformatics/btu090. Epub 2014 Feb 17.

PMID:
24535097
14.

WGCNA: an R package for weighted correlation network analysis.

Langfelder P, Horvath S.

BMC Bioinformatics. 2008 Dec 29;9:559. doi: 10.1186/1471-2105-9-559.

15.

OmicCircos: A Simple-to-Use R Package for the Circular Visualization of Multidimensional Omics Data.

Hu Y, Yan C, Hsu CH, Chen QR, Niu K, Komatsoulis GA, Meerzaman D.

Cancer Inform. 2014 Jan 16;13:13-20. doi: 10.4137/CIN.S13495. eCollection 2014.

16.

compcodeR--an R package for benchmarking differential expression methods for RNA-seq data.

Soneson C.

Bioinformatics. 2014 Sep 1;30(17):2517-8. doi: 10.1093/bioinformatics/btu324. Epub 2014 May 9.

PMID:
24813215
17.

Codelink: an R package for analysis of GE healthcare gene expression bioarrays.

Diez D, Alvarez R, Dopazo A.

Bioinformatics. 2007 May 1;23(9):1168-9. Epub 2007 Mar 7.

PMID:
17344240
18.

regioneR: an R/Bioconductor package for the association analysis of genomic regions based on permutation tests.

Gel B, Díez-Villanueva A, Serra E, Buschbeck M, Peinado MA, Malinverni R.

Bioinformatics. 2016 Jan 15;32(2):289-91. doi: 10.1093/bioinformatics/btv562. Epub 2015 Sep 30.

19.

Model-based gene set analysis for Bioconductor.

Bauer S, Robinson PN, Gagneur J.

Bioinformatics. 2011 Jul 1;27(13):1882-3. doi: 10.1093/bioinformatics/btr296. Epub 2011 May 10.

20.

R/EBcoexpress: an empirical Bayesian framework for discovering differential co-expression.

Dawson JA, Ye S, Kendziorski C.

Bioinformatics. 2012 Jul 15;28(14):1939-40. doi: 10.1093/bioinformatics/bts268. Epub 2012 May 16.

Supplemental Content

Support Center