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Items: 1 to 20 of 107

1.

onlineFDR: an R package to control the false discovery rate for growing data repositories.

Robertson DS, Wildenhain J, Javanmard A, Karp NA.

Bioinformatics. 2019 Oct 15;35(20):4196-4199. doi: 10.1093/bioinformatics/btz191.

2.

FamAgg: an R package to evaluate familial aggregation of traits in large pedigrees.

Rainer J, Taliun D, D'Elia Y, Pattaro C, Domingues FS, Weichenberger CX.

Bioinformatics. 2016 May 15;32(10):1583-5. doi: 10.1093/bioinformatics/btw019. Epub 2016 Jan 22.

3.

methylGSA: a Bioconductor package and Shiny app for DNA methylation data length bias adjustment in gene set testing.

Ren X, Kuan PF.

Bioinformatics. 2019 Jun 1;35(11):1958-1959. doi: 10.1093/bioinformatics/bty892.

PMID:
30346483
4.

miRNAmeConverter: an R/bioconductor package for translating mature miRNA names to different miRBase versions.

Haunsberger SJ, Connolly NM, Prehn JH.

Bioinformatics. 2017 Feb 15;33(4):592-593. doi: 10.1093/bioinformatics/btw660.

PMID:
27797767
5.

Genetic association testing using the GENESIS R/Bioconductor package.

Gogarten SM, Sofer T, Chen H, Yu C, Brody JA, Thornton TA, Rice KM, Conomos MP.

Bioinformatics. 2019 Jul 22. pii: btz567. doi: 10.1093/bioinformatics/btz567. [Epub ahead of print]

PMID:
31329242
6.

Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data.

Wang B, Cunningham JM, Yang XH.

Bioinformatics. 2015 Sep 15;31(18):3043-5. doi: 10.1093/bioinformatics/btv289. Epub 2015 May 15.

7.

HilbertCurve: an R/Bioconductor package for high-resolution visualization of genomic data.

Gu Z, Eils R, Schlesner M.

Bioinformatics. 2016 Aug 1;32(15):2372-4. doi: 10.1093/bioinformatics/btw161. Epub 2016 Mar 24.

PMID:
27153599
8.

rTANDEM, an R/Bioconductor package for MS/MS protein identification.

Fournier F, Joly Beauparlant C, Paradis R, Droit A.

Bioinformatics. 2014 Aug 1;30(15):2233-4. doi: 10.1093/bioinformatics/btu178. Epub 2014 Apr 3.

PMID:
24700319
9.

Transcriptogramer: an R/Bioconductor package for transcriptional analysis based on protein-protein interaction.

Morais DAA, Almeida RMC, Dalmolin RJS.

Bioinformatics. 2019 Aug 15;35(16):2875-2876. doi: 10.1093/bioinformatics/btz007.

PMID:
30624611
10.

RTNduals: An R/Bioconductor package for analysis of co-regulation and inference of dual regulons.

Chagas VS, Groeneveld CS, Oliveira KG, Trefflich S, de Almeida RC, Ponder BAJ, Meyer KB, Jones SJM, Robertson AG, Castro MAA.

Bioinformatics. 2019 Jun 28. pii: btz534. doi: 10.1093/bioinformatics/btz534. [Epub ahead of print]

PMID:
31250887
11.

DNAshapeR: an R/Bioconductor package for DNA shape prediction and feature encoding.

Chiu TP, Comoglio F, Zhou T, Yang L, Paro R, Rohs R.

Bioinformatics. 2016 Apr 15;32(8):1211-3. doi: 10.1093/bioinformatics/btv735. Epub 2015 Dec 14.

12.

DaMiRseq-an R/Bioconductor package for data mining of RNA-Seq data: normalization, feature selection and classification.

Chiesa M, Colombo GI, Piacentini L.

Bioinformatics. 2018 Apr 15;34(8):1416-1418. doi: 10.1093/bioinformatics/btx795.

PMID:
29236969
13.

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
14.

Testing clonal relatedness of two tumors from the same patient based on their mutational profiles: update of the Clonality R package.

Mauguen A, Seshan VE, Begg CB, Ostrovnaya I.

Bioinformatics. 2019 Nov 1;35(22):4776-4778. doi: 10.1093/bioinformatics/btz486.

PMID:
31198957
15.

clustComp, a bioconductor package for the comparison of clustering results.

Torrente A, Brazma A.

Bioinformatics. 2017 Dec 15;33(24):4001-4003. doi: 10.1093/bioinformatics/btx532.

16.

InterMineR: an R package for InterMine databases.

Kyritsis KA, Wang B, Sullivan J, Lyne R, Micklem G.

Bioinformatics. 2019 Sep 1;35(17):3206-3207. doi: 10.1093/bioinformatics/btz039.

17.

CancerSubtypes: an R/Bioconductor package for molecular cancer subtype identification, validation and visualization.

Xu T, Le TD, Liu L, Su N, Wang R, Sun B, Colaprico A, Bontempi G, Li J.

Bioinformatics. 2017 Oct 1;33(19):3131-3133. doi: 10.1093/bioinformatics/btx378.

PMID:
28605519
18.

Triplex: an R/Bioconductor package for identification and visualization of potential intramolecular triplex patterns in DNA sequences.

Hon J, MartĂ­nek T, Rajdl K, Lexa M.

Bioinformatics. 2013 Aug 1;29(15):1900-1. doi: 10.1093/bioinformatics/btt299. Epub 2013 May 24.

PMID:
23709494
19.

IWTomics: testing high-resolution sequence-based 'Omics' data at multiple locations and scales.

Cremona MA, Pini A, Cumbo F, Makova KD, Chiaromonte F, Vantini S.

Bioinformatics. 2018 Jul 1;34(13):2289-2291. doi: 10.1093/bioinformatics/bty090.

20.

MWASTools: an R/bioconductor package for metabolome-wide association studies.

Rodriguez-Martinez A, Posma JM, Ayala R, Neves AL, Anwar M, Petretto E, Emanueli C, Gauguier D, Nicholson JK, Dumas ME.

Bioinformatics. 2018 Mar 1;34(5):890-892. doi: 10.1093/bioinformatics/btx477.

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