Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Results: 1 to 20 of 120

1.

Clonality: an R package for testing clonal relatedness of two tumors from the same patient based on their genomic profiles.

Ostrovnaya I, Seshan VE, Olshen AB, Begg CB.

Bioinformatics. 2011 Jun 15;27(12):1698-9. doi: 10.1093/bioinformatics/btr267. Epub 2011 May 5.

PMID:
21546399
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Girafe--an R/Bioconductor package for functional exploration of aligned next-generation sequencing reads.

Toedling J, Ciaudo C, Voinnet O, Heard E, Barillot E.

Bioinformatics. 2010 Nov 15;26(22):2902-3. doi: 10.1093/bioinformatics/btq531. Epub 2010 Sep 21.

PMID:
20861030
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

VegaMC: a R/bioconductor package for fast downstream analysis of large array comparative genomic hybridization datasets.

Morganella S, Ceccarelli M.

Bioinformatics. 2012 Oct 1;28(19):2512-4. Epub 2012 Jul 18.

PMID:
22815357
[PubMed - indexed for MEDLINE]
Free Article
4.

Testing clonality of three and more tumors using their loss of heterozygosity profiles.

Ostrovnaya I.

Stat Appl Genet Mol Biol. 2012 Jul 13;11(4). pii: /j/sagmb.2012.11.issue-4/1544-6115.1757/1544-6115.1757.xml. doi: 10.1515/1544-6115.1757. Review.

PMID:
22850066
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

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.

PMID:
24526832
[PubMed]
Free PMC Article
6.

ggbio: an R package for extending the grammar of graphics for genomic data.

Yin T, Cook D, Lawrence M.

Genome Biol. 2012 Aug 31;13(8):R77. [Epub ahead of print]

PMID:
22937822
[PubMed - as supplied by publisher]
Free PMC Article
7.

RedeR: R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations.

Castro MA, Wang X, Fletcher MN, Meyer KB, Markowetz F.

Genome Biol. 2012 Apr 24;13(4):R29. doi: 10.1186/gb-2012-13-4-r29.

PMID:
22531049
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

CGHnormaliter: a Bioconductor package for normalization of array CGH data with many CNAs.

van Houte BP, Binsl TW, Hettling H, Heringa J.

Bioinformatics. 2010 May 15;26(10):1366-7. doi: 10.1093/bioinformatics/btq155. Epub 2010 Apr 23.

PMID:
20418341
[PubMed - indexed for MEDLINE]
Free Article
9.

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
[PubMed - indexed for MEDLINE]
Free Article
10.

OTUbase: an R infrastructure package for operational taxonomic unit data.

Beck D, Settles M, Foster JA.

Bioinformatics. 2011 Jun 15;27(12):1700-1. doi: 10.1093/bioinformatics/btr196. Epub 2011 Apr 15.

PMID:
21498398
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

CalMaTe: a method and software to improve allele-specific copy number of SNP arrays for downstream segmentation.

Ortiz-Estevez M, Aramburu A, Bengtsson H, Neuvial P, Rubio A.

Bioinformatics. 2012 Jul 1;28(13):1793-4. doi: 10.1093/bioinformatics/bts248. Epub 2012 May 9.

PMID:
22576175
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

arrayQualityMetrics--a bioconductor package for quality assessment of microarray data.

Kauffmann A, Gentleman R, Huber W.

Bioinformatics. 2009 Feb 1;25(3):415-6. doi: 10.1093/bioinformatics/btn647. Epub 2008 Dec 23.

PMID:
19106121
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

SomatiCA: identifying, characterizing and quantifying somatic copy number aberrations from cancer genome sequencing data.

Chen M, Gunel M, Zhao H.

PLoS One. 2013 Nov 12;8(11):e78143. doi: 10.1371/journal.pone.0078143. eCollection 2013.

PMID:
24265680
[PubMed - in process]
Free PMC Article
14.

SNPchip: R classes and methods for SNP array data.

Scharpf RB, Ting JC, Pevsner J, Ruczinski I.

Bioinformatics. 2007 Mar 1;23(5):627-8. Epub 2007 Jan 4.

PMID:
17204461
[PubMed - indexed for MEDLINE]
Free Article
15.

SpeCond: a method to detect condition-specific gene expression.

Cavalli FM, Bourgon R, Vaquerizas JM, Luscombe NM.

Genome Biol. 2011 Oct 18;12(10):R101. doi: 10.1186/gb-2011-12-10-r101. Erratum in: Genome Biol. 2011;12(12):413. Huber, Wolfgang [removed].

PMID:
22008066
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Smoothing waves in array CGH tumor profiles.

van de Wiel MA, Brosens R, Eilers PH, Kumps C, Meijer GA, Menten B, Sistermans E, Speleman F, Timmerman ME, Ylstra B.

Bioinformatics. 2009 May 1;25(9):1099-104. doi: 10.1093/bioinformatics/btp132. Epub 2009 Mar 10.

PMID:
19276148
[PubMed - indexed for MEDLINE]
Free Article
17.

Clonal origin of lymph node metastases in bladder carcinoma.

Jones TD, Carr MD, Eble JN, Wang M, Lopez-Beltran A, Cheng L.

Cancer. 2005 Nov 1;104(9):1901-10.

PMID:
16196038
[PubMed - indexed for MEDLINE]
Free Article
18.

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
[PubMed - indexed for MEDLINE]
Free Article
19.

TumorBoost: normalization of allele-specific tumor copy numbers from a single pair of tumor-normal genotyping microarrays.

Bengtsson H, Neuvial P, Speed TP.

BMC Bioinformatics. 2010 May 12;11:245. doi: 10.1186/1471-2105-11-245.

PMID:
20462408
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips.

Ritchie ME, Carvalho BS, Hetrick KN, Tavaré S, Irizarry RA.

Bioinformatics. 2009 Oct 1;25(19):2621-3. doi: 10.1093/bioinformatics/btp470. Epub 2009 Aug 6.

PMID:
19661241
[PubMed - indexed for MEDLINE]
Free PMC Article

Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

Write to the Help Desk