Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: pypi: cwltool

https://packages.ecosyste.ms/registries/pypi.org/packages/cwltool

Common workflow language reference implementation
422 versions
Latest release: about 1 year ago
17 dependent packages
70,376 downloads last month

Papers Mentioning cwltool 8

Tximeta: Reference sequence checksums for provenance identification in RNA-seq
Cited by: 122
Author(s): Michael I. Love, Charlotte Soneson, Peter Hickey, Lisa K. Johnson, Nicholas Pierce, Lori Shepherd, Martin Morgan, Rob Patro
Software Mentions: 19
Published: over 4 years ago

10.1093/gigascience/giz095

Sharing interoperable workflow provenance: A review of best practices and their practical application in CWLProv
Cited by: 45
Author(s): Farah Zaib Khan, Stian Soiland‐Reyes, Richard O. Sinnott, Andrew Lonie, Carole Goble, Michael R. Crusoe
Software Mentions: 8
Published: about 5 years ago

10.1371/journal.pcbi.1008622

Using prototyping to choose a bioinformatics workflow management system
Cited by: 20
Author(s): Michael Jackson, Kostas Kavoussanakis, Eric Wallace
Software Mentions: 5
Published: over 3 years ago

10.1186/s12859-018-2446-1

Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics
Cited by: 26
Author(s): Shakuntala Baichoo, Yassine Souilmi, Sumir Panji, Gerrit Botha, Ayton Meintjes, Scott Hazelhurst, Hocine Bendou, Eugene de Beste, Phelelani T. Mpangase, Oussema Souiai, Mustafa Alghali, Long Yi, Brian D. O’Connor, Michael R. Crusoe, Don Armstrong, Shaun Aron, Fourie Joubert, Azza E. Ahmed, Mamana Mbiyavanga, Peter van Heusden, Lerato E Magosi, Jennie Zermeno, Liudmila Sergeevna Mainzer, Faisal M. Fadlelmola, C V Jongeneel, Nicola Mulder
Software Mentions: 4
Published: almost 6 years ago

10.1093/gigascience/giz052

Accumulating computational resource usage of genomic data analysis workflow to optimize cloud computing instance selection
Cited by: 8
Author(s): Toshio Ohta, Tomoya Tanjo, Osamu Ogasawara
Software Mentions: 4
Published: over 5 years ago

10.1038/s41597-019-0174-7

Creating reproducible pharmacogenomic analysis pipelines
Cited by: 5
Author(s): Anthony Mammoliti, Alexander Smirnov, Zhaleh Safikhani, Wail Ba-Alawi, Benjamin Haibe‐Kains
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-019-55636-3

Deep whole-genome sequencing of 3 cancer cell lines on 2 sequencing platforms
Cited by: 31
Author(s): Kanika Arora, Minita Shah, Molly Johnson, Rashesh Sanghvi, Jennifer Shelton, Kshithija Nagulapalli, Dayna M. Oschwald, Michael C. Zody, Søren Germer, Vaidehi Jobanputra, Jade Carter, Nicolas Robine
Software Mentions: 2
Published: almost 5 years ago

10.1093/gigascience/giz084

CWL-Airflow: a lightweight pipeline manager supporting Common Workflow Language
Cited by: 40
Author(s): Michael Kotliar, Andrey V. Kartashov, Artem Barski
Software Mentions: 2
Published: over 5 years ago