Debian Med Project
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Summary
Laboratory
Debian Med suggestions for medical laboratories

Currently Debian Med does not yet contain any software which is specifically intended to run a medical laboratory. We just provide a list of Free Software that might be used and which might be included into Debian at a later point in time provided somebody is willing to take over the packaging work.

The list to the right includes various software projects which are of some interest to the Debian Med Project. Currently, only a few of them are available as Debian packages. It is our goal, however, to include all software in Debian Med which can sensibly add to a high quality Debian Pure Blend.

For a better overview of the project's availability as a Debian package, each head row has a color code according to this scheme:

If you discover a project which looks like a good candidate for Debian Med to you, or if you have prepared an unofficial Debian package, please do not hesitate to send a description of that project to the Debian Med mailing list

Links to other tasks

Debian Med Laboratory packages

No known packages available

Catissuesuite
tool for biospecimen inventory management
License: to be clarified
Debian package not available

CaTissue Suite is caBIG's biorepository tool for biospecimen inventory management, tracking, and annotation. This tool permits users to enter and retrieve data concerning the collection, storage, quality assurance, and distribution of biospecimens. caTissue Suite is sufficiently scalable and configurable for deployment across biospecimen resources of varying size and function, and that manage multiple types of biospecimens (tissue, biofluids, nucleic acid). The tool provides search functionality for both the biorepository staff and research scientist, who may be interested in searching for and requesting biospecimens for correlative science studies.

caTissue Suite features include:

  • Customizable user roles and privileges structure to support multiple, independent repositories within a single caTissue installation.
  • Collection Protocol template creation allows representation of pre-defined specimen processing schemes and multiple study arms and time points in order to expedite data entry.
  • Patient study registration with duplicate patient checking algorithm.
  • Facilitated specimen accessioning, recording of processing events, creation and recording of biospecimen derivatives and aliquots.
  • Recording of biospecimen shipping and tracking events across repositories in a single caTissue installation.
  • Improved data form display for custom annotations (Dynamic Extensions tool), including new CAP checklist based forms for pathology annotation of major organ systems.
  • caTIES-like pathology report text annotation.
  • Advanced Query “Wizard”, allowing for the creation and saving of complex queries which can be run as pre-defined or parameterized searches.
  • Searches based on temporal relationships.
  • Specimen requisition and request tracking.
Openelis
Enterprise Laboratory Information System
License: UIRF Open-source Based Public Software License
Debian package not available

OpenELIS is a robust Enterprise Laboratory Information System built around an extensible and scalable framework. OpenELIS is designed and developed through the collaborative efforts of Public Health Laboratories to accommodate business processes that are common to all public health laboratories; encompassing clinical, environmental, newborn screening, and animal testing.

The goal of the OpenELIS team is to develop a state of the art system that is economically sustainable by reducing both initial investment and ongoing maintenance costs. By using an open source approach, we ensure that the project will continue to evolve and meet the changing needs of the community.

Openfreezer
Laboratory analysis, research and investigation software application
License: GPLv4
Debian package not available

OpenFreezer Laboratory Reagent Tracking and Workflow Management System is an open-source information management system for biological laboratories. The system tracks information on all reagents within the laboratory, including specific properties of each reagent (i.e. sequences, external identifiers), and on all the physical preparations of these reagents (storage locations, physical characteristics). Complementing this repository are workflow tools, such as primer design and automated feature mapping, making OpenFreezer a valuable tool for the bench scientist.

Please register by following this link if you are using openfreezer.
*Popularitycontest results: number of people who use this package regularly (number of people who upgraded this package recently) out of 167678