Reference health
A review of bioinformatic pipeline frameworks
10/10 checkable references clean · checked 2026-07-14
Every reference with a DOI in the deposited reference list resolved to a known work in Crossref or DataCite at the dated check, and none carried a publisher retraction, withdrawal, or removal notice.
7 without a DOI — not checked. A reference deposited without a DOI is never matched by title or guessed at; it stays outside the checked set, and this line discloses that.
The 10 checked references that resolve
resolves10.1093/bioinformatics/btv061
Omics Pipe: a community-based framework for reproducible multi-omics data analysis
resolves10.1093/bioinformatics/btq524
Ruffus: a lightweight Python library for computational pipelines
resolves10.1093/bioinformatics/bts167
Bpipe: a tool for running and managing bioinformatics pipelines
resolves10.1186/gb-2010-11-8-r86
Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences
resolves10.1093/nar/gkt328
The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud
resolves10.1016/j.jbi.2014.01.005
Cloud-based bioinformatics workflow platform for large-scale next-generation sequencing analyses
resolves10.1093/bib/bbu043
Virtual Reference Environments: a simple way to make research reproducible
resolves10.1186/s13062-015-0071-8
Experiences with workflows for automating data-intensive bioinformatics
The 7 references without a DOI — listed, not checked
no DOI — not checkedCloud-based platforms offer scalability and collaborative research advantages.
no DOI — not checkedBuilding robust systems an essay
no DOI — not checkedStallman RM McGrath R. GNU Make: a Program for Directed Recompilation, Version 3.79.1. Boston: GNU Press, 2002.
no DOI — not checkedLi H. Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM. arXiv 2013;1303.3997v2.
no DOI — not checkedPegasus: a framework for mapping complex scientific workflows onto distributed systems
no DOI — not checkedA framework for variation discovery and genotyping using next- generation DNA sequencing data
no DOI — not checkedDooley R Vaughn M Stanzione D , . Software-as-a-service: the iPlant foundation API. 5th IEEE Workshop on Many-Task Computing on Grids and Supercomputers (MTAGS), 2012. Salt Lake City, Utah, USA.
What this badge says. CiteStamped means the CHECKABLE references of this
work were clean at the dated check: each resolved to a known work in a public registry, and none
carried a publisher retraction notice at that time. It says nothing about the quality, findings,
or importance of the work itself, and nothing about references deposited without a DOI.
checked 2026-07-14 — re-checked daily as this page is visited; titles and statuses come from Crossref and DataCite and are not part of the signed record
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