%0 Journal Article %1 Leipzig:2017:Brief-Bioinform:27013646 %A Leipzig, J %D 2017 %J Brief Bioinform %K %N 3 %P 530-536 %R 10.1093/bib/bbw020 %T A review of bioinformatic pipeline frameworks %U https://www.ncbi.nlm.nih.gov/pubmed/27013646 %V 18 %X High-throughput bioinformatic analyses increasingly rely on pipeline frameworks to process sequence and metadata. Modern implementations of these frameworks differ on three key dimensions: using an implicit or explicit syntax, using a configuration, convention or class-based design paradigm and offering a command line or workbench interface. Here I survey and compare the design philosophies of several current pipeline frameworks. I provide practical recommendations based on analysis requirements and the user base.

@article{Leipzig:2017:Brief-Bioinform:27013646, abstract = {High-throughput bioinformatic analyses increasingly rely on pipeline frameworks to process sequence and metadata. Modern implementations of these frameworks differ on three key dimensions: using an implicit or explicit syntax, using a configuration, convention or class-based design paradigm and offering a command line or workbench interface. Here I survey and compare the design philosophies of several current pipeline frameworks. I provide practical recommendations based on analysis requirements and the user base.}, added-at = {2017-11-21T22:20:29.000+0100}, author = {Leipzig, J}, biburl = {https://www.bibsonomy.org/bibtex/22fd7189189001a00077f00f41310319e/marcsaric}, doi = {10.1093/bib/bbw020}, interhash = {e8ed059eaba5462c762281a2f55c1050}, intrahash = {2fd7189189001a00077f00f41310319e}, journal = {Brief Bioinform}, keywords = {}, month = may, number = 3, pages = {530-536}, pmid = {27013646}, timestamp = {2017-11-21T22:20:29.000+0100}, title = {A review of bioinformatic pipeline frameworks}, url = {https://www.ncbi.nlm.nih.gov/pubmed/27013646}, volume = 18, year = 2017 }