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: bpipe

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

Minimal & Simple Pipeline for Python
1 version
Latest release: over 6 years ago
16 downloads last month

Papers Mentioning bpipe 11

SUSHI: an exquisite recipe for fully documented, reproducible and reusable NGS data analysis
Cited by: 75
Author(s): Masaomi Hatakeyama, Lennart Opitz, Giancarlo Russo, Weihong Qi, Ralph Schlapbach, Hubert Rehrauer
Software Mentions: 6
Published: over 8 years ago

10.1371/journal.pone.0211608

Managing genomic variant calling workflows with Swift/T
Cited by: 7
Author(s): Azza E. Ahmed, Jacob R Heldenbrand, Yan W. Asmann, Faisal M. Fadlelmola, Daniel S. Katz, Katherine Kendig, Matthew Kendzior, Tiffany Li, Yingxue Ren, Elliott Rodriguez, Matthew Weber, Justin M. Wozniak, Jennie Zermeno, Liudmila Sergeevna Mainzer
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0139868

NGS-QCbox and Raspberry for Parallel, Automated and Rapid Quality Control Analysis of Large-Scale Next Generation Sequencing (Illumina) Data
Cited by: 31
Author(s): Mohan A. V. S. K. Katta, Aamir W. Khan, Dadakhalandar Doddamani, Mahendar Thudi, Rajeev K. Varshney
Software Mentions: 5
Published: about 9 years ago

10.1093/bib/bbw020

A review of bioinformatic pipeline frameworks
Cited by: 155
Author(s): Jeremy Leipzig
Software Mentions: 4
Published: over 8 years ago

10.1038/s41598-018-25022-6

DNAp: A Pipeline for DNA-seq Data Analysis
Cited by: 13
Author(s): Jason Causey, Cody Ashby, Karl Walker, Zhiping Paul Wang, Mary Qu Yang, Yuanfang Guan, Jason H. Moore, Xiuzhen Huang
Software Mentions: 4
Published: over 6 years ago

10.1186/s12859-017-1747-0

Investigating reproducibility and tracking provenance – A genomic workflow case study
Cited by: 56
Author(s): Sehrish Kanwal, Farah Zaib Khan, Andrew Lonie, Richard O. Sinnott
Software Mentions: 3
Published: over 7 years ago

10.1155/2015/292950

Challenges of the Unknown: Clinical Application of Microbial Metagenomics
Cited by: 14
Author(s): Graham Rose, David Wooldridge, Catherine Anscombe, Edward T. Mee, Raju Misra, Saheer E. Gharbia
Software Mentions: 3
Published: almost 10 years ago

10.1093/gigascience/giy062

Massive NGS data analysis reveals hundreds of potential novel gene fusions in human cell lines
Cited by: 6
Author(s): Silvia Gioiosa, Marco Bolis, Tiziano Flati, Annalisa Massini, Enrico Garattini, Giovanni Chillemi, Maddalena Fratelli, Tiziana Castrignanò
Software Mentions: 3
Published: over 6 years ago

10.3390/jcm10020345

A Multi-Modal MRI Analysis of Cortical Structure in Relation to Gender Dysphoria, Sexual Orientation, and Age in Adolescents
Cited by: 12
Author(s): Malvina N. Skorska, Sofia Chavez, Gabriel A. Devenyi, Raihaan Patel, Lindsey T. Thurston, Meng‐Chuan Lai, Kenneth J. Zucker, M. Mallar Chakravarty, Nancy J. Lobaugh, Doug P. VanderLaan
Software Mentions: 2
Published: almost 4 years ago

10.1093/gigascience/giy045

Necklace: combining reference and assembled transcriptomes for more comprehensive RNA-Seq analysis
Cited by: 10
Author(s): N. Davidson, Alicia Oshlack
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0187779

Playing Super Mario 64 increases hippocampal grey matter in older adults
Cited by: 77
Author(s): Greg L. West, Benjamin Rich Zendel, Kyoko Konishi, Jessica Benady-Chorney, Véronique D. Bohbot, Isabelle Peretz, Sylvie Belleville
Software Mentions: 1
Published: almost 7 years ago