191 related articles for article (PubMed ID: 30378068)
1. Building Portable and Reproducible Cancer Informatics Workflows: An RNA Sequencing Case Study.
Kaushik G; Davis-Dusenbery B
Methods Mol Biol; 2019; 1878():39-64. PubMed ID: 30378068
[TBL] [Abstract][Full Text] [Related]
2. The Cancer Genomics Cloud: Collaborative, Reproducible, and Democratized-A New Paradigm in Large-Scale Computational Research.
Lau JW; Lehnert E; Sethi A; Malhotra R; Kaushik G; Onder Z; Groves-Kirkby N; Mihajlovic A; DiGiovanna J; Srdic M; Bajcic D; Radenkovic J; Mladenovic V; Krstanovic D; Arsenijevic V; Klisic D; Mitrovic M; Bogicevic I; Kural D; Davis-Dusenbery B;
Cancer Res; 2017 Nov; 77(21):e3-e6. PubMed ID: 29092927
[TBL] [Abstract][Full Text] [Related]
3. Accumulating computational resource usage of genomic data analysis workflow to optimize cloud computing instance selection.
Ohta T; Tanjo T; Ogasawara O
Gigascience; 2019 Apr; 8(4):. PubMed ID: 31222199
[TBL] [Abstract][Full Text] [Related]
4. Using the Seven Bridges Cancer Genomics Cloud to Access and Analyze Petabytes of Cancer Data.
Malhotra R; Seth I; Lehnert E; Zhao J; Kaushik G; Williams EH; Sethi A; Davis-Dusenbery BN
Curr Protoc Bioinformatics; 2017 Dec; 60():11.16.1-11.16.32. PubMed ID: 29220078
[TBL] [Abstract][Full Text] [Related]
5. Simplifying the development of portable, scalable, and reproducible workflows.
Piccolo SR; Ence ZE; Anderson EC; Chang JT; Bild AH
Elife; 2021 Oct; 10():. PubMed ID: 34643507
[TBL] [Abstract][Full Text] [Related]
6. Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics.
Baichoo S; Souilmi Y; Panji S; Botha G; Meintjes A; Hazelhurst S; Bendou H; Beste E; Mpangase PT; Souiai O; Alghali M; Yi L; O'Connor BD; Crusoe M; Armstrong D; Aron S; Joubert F; Ahmed AE; Mbiyavanga M; Heusden PV; Magosi LE; Zermeno J; Mainzer LS; Fadlelmola FM; Jongeneel CV; Mulder N
BMC Bioinformatics; 2018 Nov; 19(1):457. PubMed ID: 30486782
[TBL] [Abstract][Full Text] [Related]
7. Scalable Workflows and Reproducible Data Analysis for Genomics.
Strozzi F; Janssen R; Wurmus R; Crusoe MR; Githinji G; Di Tommaso P; Belhachemi D; Möller S; Smant G; de Ligt J; Prins P
Methods Mol Biol; 2019; 1910():723-745. PubMed ID: 31278683
[TBL] [Abstract][Full Text] [Related]
8. Building Containerized Workflows Using the BioDepot-Workflow-Builder.
Hung LH; Hu J; Meiss T; Ingersoll A; Lloyd W; Kristiyanto D; Xiong Y; Sobie E; Yeung KY
Cell Syst; 2019 Nov; 9(5):508-514.e3. PubMed ID: 31521606
[TBL] [Abstract][Full Text] [Related]
9. Genomics Virtual Laboratory: A Practical Bioinformatics Workbench for the Cloud.
Afgan E; Sloggett C; Goonasekera N; Makunin I; Benson D; Crowe M; Gladman S; Kowsar Y; Pheasant M; Horst R; Lonie A
PLoS One; 2015; 10(10):e0140829. PubMed ID: 26501966
[TBL] [Abstract][Full Text] [Related]
10. ILIAD: a suite of automated Snakemake workflows for processing genomic data for downstream applications.
Herrick N; Walsh S
BMC Bioinformatics; 2023 Nov; 24(1):424. PubMed ID: 37940870
[TBL] [Abstract][Full Text] [Related]
11. Reproducible bioinformatics project: a community for reproducible bioinformatics analysis pipelines.
Kulkarni N; Alessandrì L; Panero R; Arigoni M; Olivero M; Ferrero G; Cordero F; Beccuti M; Calogero RA
BMC Bioinformatics; 2018 Oct; 19(Suppl 10):349. PubMed ID: 30367595
[TBL] [Abstract][Full Text] [Related]
12. CloudNeo: a cloud pipeline for identifying patient-specific tumor neoantigens.
Bais P; Namburi S; Gatti DM; Zhang X; Chuang JH
Bioinformatics; 2017 Oct; 33(19):3110-3112. PubMed ID: 28605406
[TBL] [Abstract][Full Text] [Related]
13. Tibanna: software for scalable execution of portable pipelines on the cloud.
Lee S; Johnson J; Vitzthum C; Kırlı K; Alver BH; Park PJ
Bioinformatics; 2019 Nov; 35(21):4424-4426. PubMed ID: 31077294
[TBL] [Abstract][Full Text] [Related]
14. The ISB Cancer Genomics Cloud: A Flexible Cloud-Based Platform for Cancer Genomics Research.
Reynolds SM; Miller M; Lee P; Leinonen K; Paquette SM; Rodebaugh Z; Hahn A; Gibbs DL; Slagel J; Longabaugh WJ; Dhankani V; Reyes M; Pihl T; Backus M; Bookman M; Deflaux N; Bingham J; Pot D; Shmulevich I
Cancer Res; 2017 Nov; 77(21):e7-e10. PubMed ID: 29092928
[TBL] [Abstract][Full Text] [Related]
15. Software Workflows and Infrastructures for Precision Oncology.
Osman W; Laganà A
Adv Exp Med Biol; 2022; 1361():23-35. PubMed ID: 35230681
[TBL] [Abstract][Full Text] [Related]
16. Reproducible, Scalable Fusion Gene Detection from RNA-Seq.
Arsenijevic V; Davis-Dusenbery BN
Methods Mol Biol; 2016; 1381():223-37. PubMed ID: 26667464
[TBL] [Abstract][Full Text] [Related]
17. CWL-Airflow: a lightweight pipeline manager supporting Common Workflow Language.
Kotliar M; Kartashov AV; Barski A
Gigascience; 2019 Jul; 8(7):. PubMed ID: 31321430
[TBL] [Abstract][Full Text] [Related]
18. Semantic workflows for benchmark challenges: Enhancing comparability, reusability and reproducibility.
Srivastava A; Adusumilli R; Boyce H; Garijo D; Ratnakar V; Mayani R; Yu T; Machiraju R; Gil Y; Mallick P
Pac Symp Biocomput; 2019; 24():208-219. PubMed ID: 30864323
[TBL] [Abstract][Full Text] [Related]
19. Kronos: a workflow assembler for genome analytics and informatics.
Taghiyar MJ; Rosner J; Grewal D; Grande BM; Aniba R; Grewal J; Boutros PC; Morin RD; Bashashati A; Shah SP
Gigascience; 2017 Jul; 6(7):1-10. PubMed ID: 28655203
[TBL] [Abstract][Full Text] [Related]
20. Bioinformatics tools developed to support BioCompute Objects.
Patel JA; Dean DA; King CH; Xiao N; Koc S; Minina E; Golikov A; Brooks P; Kahsay R; Navelkar R; Ray M; Roberson D; Armstrong C; Mazumder R; Keeney J
Database (Oxford); 2021 Mar; 2021():. PubMed ID: 33784373
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
