Difference between revisions of "OpenSpecimen"

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#REDIRECT [[Krishagni Solutions Pvt. Ltd.]]
{{Infobox software
| name                  = OpenSpecimen
| title                  = OpenSpecimen
| logo                  = <!-- [[File: ]] -->
| screenshot            = <!-- [[File: ]] -->
| caption                =
| collapsible            =
| author                =
| developer              = [[Krishagni Solutions Pvt. Ltd.]]
| released              = {{Start date|2014|09|25}}<ref name="OS1.0">{{cite web |url=https://github.com/krishagni/openspecimen/releases/tag/os-v1.0 |title=Release of os-v1.0 |publisher=GitHub |date-25 September 2014 |accessdate=17 October 2014}}</ref>
| discontinued          =
| frequently updated    = yes<!-- Release version update? Don't edit this page, just click on the version number! -->
| programming language  = Java
| operating system      = Cross-platform
| platform              =
| size                  =
| language              =
| status                =
| genre                  = [[Laboratory informatics]] software
| license                = BSD 3-Clause License<ref name="OSLicense">{{cite web |url=http://www.catissueplus.org/feature/free-open-source |title=Free & Open Source |publisher=Krishagni Solutions Pvt. Ltd |accessdate=17 October 2014}}</ref><ref name="OSLic2">{{cite web |url=https://github.com/krishagni/openspecimen/blob/trunk/LICENSE.md |title=openspecimen / LICENSE.md |publisher=GitHub |date=24 September 2014 |accessdate=17 October 2014}}</ref>
| website                = [http://www.catissueplus.org/ catissuePlus.org]
}}
 
'''OpenSpecimen''' is an open-source [[biobank|biobanking]] [[laboratory information management system|LIMS]]/[[laboratory information system|LIS]] based upon its previous offering NCI caTissue Plus. The software comes in a free Community edition and a priced Enterprise edition, with the various Pro versions including support and additional plug-ins.<ref name="OSPriceSupp">{{cite web |url=http://www.catissueplus.org/pricing |title=OpenSpecimen Professional Support Services |publisher=Krishagni Solutions Pvt. Ltd |accessdate=17 October 2014}}</ref>
 
[[Krishagni Solutions Pvt. Ltd.]] leads development and maintenance of the software for the OpenSpecimen user community. The company also sells a number of professional support services, including developer support, remote server maintenance, customization, and data migration support.<ref name="OSPriceSupp" />
 
==Product history==
 
OpenSpecimen was originally developed by Krishagni as caTissue Plus, a free open-source [[biobank|biobanking]] [[laboratory information management system|LIMS]]/[[laboratory information system|LIS]] heavily modeled after the [[National Cancer Institute]]'s [[National Cancer Institute#caBIG Clinical Trials, caLIMS, and caTissue|caLIMS]] product.<ref name="OSAbout">{{cite web |url=http://www.catissueplus.org/plus |archiveurl=https://web.archive.org/web/20131105105123/http://www.catissueplus.org/plus |title=caTissue Plus - Feature rich, Faster, Better UI |publisher=Krishagni Solutions Pvt. Ltd |archivedate=05 November 2013 |accessdate=08 May 2013}}</ref> Krishagni also offered fee-based support services for the free software.
In July 2014, Krishangi revealed caTissue Plus was being rewritten as OpenSpecimen, with the rewrite tentatively set to be complete by March 2015. The company stated on their website: "caTissue is a 10 year old code base. The design and architecture is old technology-based, difficult to maintain and add new featured [sic] on top of it."<ref name="OSConf">{{cite web |url=https://catissueplus.atlassian.net/wiki/display/CAT/OpenSpecimen |title=OpenSpecimen |work=OpenSpecimen Support Center |publisher=Krishagni Solutions Pvt. Ltd |date=21 July 2014 |accessdate=16 September 2014}}</ref> On July 22, release candidate one of the software was released to GitHub.<ref name="LKAnnounce">{{cite web |url=https://github.com/krishagni/openspecimen/releases/tag/OS-v1.0_RC1 |title=Release OS-v1.0_RC1 |publisher=GitHub |date-22 July 2014 |accessdate=17 October 2014}}</ref> Several other release candidates were made available, culminating in the first version 1.0 stable release of the software on September 25.<ref name="OS1.0" />
 
==Features==
Features of OpenSpecimen include<ref name="OSPriceSupp" />:
 
* multi-site support
* role-based access
* inventory management
* protocol management
* shipping and tracking management
* annotation support
* statistical reporting
 
{{As of|2014}}, development of the platform is ongoing; for information on the most current release and all associated features, visit the project's website.
 
{{Ombox productfeature}}
 
 
{| class="wikitable collapsible" style="border-style:none;" background="#ffffff" border="0" cellpadding="0" cellspacing="0"
|-
  ! colspan="2"| Product: [http://www.catissueplus.org/ OpenSpecimen]
|-
  | style="background-color:white; border-style:none;"| {{Databox LISfeature
| sample_login_man  = Y<ref name="OSAbout" />
| sample_track      = Y<ref name="OSAbout" />
| sample_batch      = Y<ref name="OSEntry">{{cite web |url=http://www.catissueplus.org/feature/rapid-data-entry |title=OpenSpecimen - Rapid Data Entry |publisher=Krishagni Solutions Pvt. Ltd |accessdate=16 September 2014}}</ref>
| task_event_sched  = Y<ref name="OSRepo">{{cite web |url=http://www.catissueplus.org/feature/data-retrieval-and-reporting |title=OpenSpecimen - Data Retrieval and Reporting |publisher=Krishagni Solutions Pvt. Ltd |accessdate=16 September 2014}}</ref>
| manual_entry      = Y<ref name="OSEntry" />
| multiple_view      = Y<ref name="OSSclog">{{cite web |url=https://catissueplus.atlassian.net/wiki/x/c4Ah |title=OpenSpecimen - Specimen Catalog |publisher=Krishagni Solutions Pvt. Ltd |accessdate=9 October 2014}}</ref>
| custom_temps_forms = Y<ref name="OSAbout" />
| data_analysis      =
| data_sharing      =
| data_mining        =
| custom_fields      = Y<ref name="OSAbout" />
| query              = Y<ref name="OSAbout" />
| import_data        = Y<ref name="OSUpload">{{cite web |url=http://www.catissueplus.org/feature/bulk-upload-excel |title=OpenSpecimen - Bulk Upload Excel |publisher=Krishagni Solutions Pvt. Ltd |accessdate=16 September 2014}}</ref>
| data_linking_int  =
| data_linking_ext  =
| eln_support        =
| export_msexcel    = Y<ref name="OSRepo" />
| export_raw        =
| data_warehouse    =
| project_task_man  =
| exp_trial_man      = Y<ref name="OSAnnot">{{cite web |url=http://www.catissueplus.org/feature/annotations |title=OpenSpecimen - Annotations |publisher=Krishagni Solutions Pvt. Ltd |accessdate=16 September 2014}}</ref>
| inventory_man      = Y<ref name="OSGraph">{{cite web |url=https://catissueplus.atlassian.net/wiki/x/BwCcAQ |title=OpenSpecimen - Storage Utilization |publisher=Krishagni Solutions Pvt. Ltd |accessdate=9 October 2014}}</ref>
| doc_image_man      = Y<ref name="OSAbout" />
| pat_case_man      = Y<ref name="OSRole">{{cite web |url=http://www.catissueplus.org/feature/multi-site-support |title=OpenSpecimen - Multi-Site Support |publisher=Krishagni Solutions Pvt. Ltd |accessdate=16 September 2014}}</ref>
| workflow_man      =
| spec_man          =
| customer_man      = Y<ref name="OSAbout" />
| billing_rev_man    = Y<ref name="OSAbout" />
 
| reg_compliance    = Y<ref name="OSRepo" />
| qa_qc              =
| performance_eval  =
| audit_trail        = Y<ref name="OSAUDIT">{{cite web |url=https://catissueplus.atlassian.net/wiki/x/QICxAQ |title=OpenSpecimen - Audit Trail |publisher=Krishagni Solutions Pvt. Ltd |accessdate=9 October 2014}}</ref>
| chain_custody      =
| roles_security    = Y<ref name="OSRole">{{cite web |url=http://www.catissueplus.org/feature/role-based-access |title=OpenSpecimen - Role Based Access |publisher=Krishagni Solutions Pvt. Ltd |accessdate=16 September 2014}}</ref>
| data_norm          =
| data_val          =
| data_encrypt      =
| version_control    =
| data_backup        =
| enviro_monitoring  =
 
| custom_reporting  = Y<ref name="OSRepo" />
| syn_reporting      =
| report_printing    = Y<ref name="OSRepo" />
| label_support      = Y<ref name="OSLABEL">{{cite web | url=https://catissueplus.atlassian.net/wiki/x/PIAh |title=OpenSpecimen - Label Generation and Printing |publisher=Krishagni Solutions Pvt. Ltd |accessdate=9 October 2014}}</ref>
| bc_rfid_support    = Y<ref name="OSRepo" />
| export_pdf        = Y<ref name="OSRepo" />
| export_msword      =
| export_htmlxml    =
| fax_integration    =
| email_integration  = Y<ref name="OSRepo" />
 
| admin_manage      = Y<ref name="OSRole" />
| modular            = Y<ref name="OSAbout" />
| instrument_inter  =
| mobile_device      =
| soft_integration  = Y<ref name="OSAPI">{{cite web |url=http://www.catissueplus.org/feature/programmatic-access-api |title=OpenSpecimen - Programmatic Access (API) |publisher=Krishagni Solutions Pvt. Ltd |accessdate=16 September 2014}}</ref>
| alarms_alerts      =
| work_timetrack    =
| voice_rec          =
| external_monitor  =
| messaging          =
| commenting        =
| multilingual      =
| network            =
| web_client        = Y<ref name="OSEntry" />
| online_help        = Y<ref name="OSAbout" />
| saas_model        = Y<ref name="OSPriceSupp" />
| usage_cost        =
 
| industries        = biotechnology, clinical, clinical research, life sciences, pathology, pharmaceutical, public health and service
}}
|-
|}
 
==Pricing==
 
The Community edition is free and open-source, available under the BSD 3-Clause License.<ref name="OSLicense">{{cite web |url=http://www.catissueplus.org/feature/free-open-source |title=Free & Open Source |publisher=Krishagni Solutions Pvt. Ltd |accessdate=17 October 2014}}</ref><ref name="OSLic2">{{cite web |url=https://github.com/krishagni/openspecimen/blob/trunk/LICENSE.md |title=openspecimen / LICENSE.md |publisher=GitHub |date=24 September 2014 |accessdate=17 October 2014}}</ref>
 
A dedicated OpenSpecimen trial version is also offered for 30 days, which is configured according to the end users' needs. OpenSpecimen experts guide the end-user through the installation, setup, and training process.
 
Pricing for the Silver Enterprise version is $10,000, while the Gold Enterprise is $20,000.
 
Packages and their features can be compared on the [http://www.catissueplus.org/pricing pricing page].
 
==Hardware/software requirements==
 
To install the free open-source Community version, the following are required:
 
* Java 1.6
* JBoss 5.1.0 GA
* [[MySQL]] 5.1.x
* Oracle 11g
* ANT 1.7
 
For more about installation requirements and instructions, consult [https://catissueplus.atlassian.net/wiki/display/CAT/Deploying+OpenSpecimen the documentation].
 
==Videos, screenshots, and other media==
 
* A demo of OpenSpecimen can be found [http://demo.openspecimen.org/openspecimen/RedirectHome.do here]
 
==Entities using OpenSpecimen==
 
Examples of organizations using OpenSpecimen include<ref name="OSPriceSupp" />:
 
Aga Khan University, Karachi, Pakistan; Children's Cancer Hospital, Cairo, Egypt; Edward Cancer Center, Illinois, U.S.; Johns Hopkins University, Maryland, U.S.; Sapien Biosciences, Hyderabad, India; St. Vincent's Hospital Melbourne, Australia; University of Leicester, U.K.; University of Michigan, U.S.; University of Nebraska, U.S.
 
==See also==
 
* [[Krishagni Solutions Pvt. Ltd.]]
 
==External links==
 
* [http://www.krishagni.com/ Krishagni Solutions] corporate site
* [http://www.catissueplus.org/ OpenSpecimen] open source home
* [https://github.com/krishagni/openspecimen OpenSpecimen] at GitHub
* [https://catissueplus.atlassian.net/wiki/display/CAT/Home OpenSpecimen] wiki
* [https://catissueplus.atlassian.net/wiki/pages/viewpage.action?pageId=17989816 OpenSpecimen] release notes
 
==References==
<references />
 
<!---Place all category tags here-->
[[Category:Laboratory informatics software (open source)]]
[[Category:Laboratory information management systems (open source)]]
[[Category:Laboratory information systems (open source)]]

Revision as of 18:17, 17 October 2014

OpenSpecimen
Developer(s) Krishagni Solutions Pvt. Ltd.
Initial release September 25, 2014 (2014-09-25)[1]
Stable release

10.3 RC1  (December 20, 2023; 10 months ago (2023-12-20))

[±]
Preview release 9.0 RC1  (April 21, 2022; 2 years ago (2022-04-21)) [±]
Written in Java
Operating system Cross-platform
Type Laboratory informatics software
License(s) BSD 3-Clause License[2][3]
Website catissuePlus.org

OpenSpecimen is an open-source biobanking LIMS/LIS based upon its previous offering NCI caTissue Plus. The software comes in a free Community edition and a priced Enterprise edition, with the various Pro versions including support and additional plug-ins.[4]

Krishagni Solutions Pvt. Ltd. leads development and maintenance of the software for the OpenSpecimen user community. The company also sells a number of professional support services, including developer support, remote server maintenance, customization, and data migration support.[4]

Product history

OpenSpecimen was originally developed by Krishagni as caTissue Plus, a free open-source biobanking LIMS/LIS heavily modeled after the National Cancer Institute's caLIMS product.[5] Krishagni also offered fee-based support services for the free software.

In July 2014, Krishangi revealed caTissue Plus was being rewritten as OpenSpecimen, with the rewrite tentatively set to be complete by March 2015. The company stated on their website: "caTissue is a 10 year old code base. The design and architecture is old technology-based, difficult to maintain and add new featured [sic] on top of it."[6] On July 22, release candidate one of the software was released to GitHub.[7] Several other release candidates were made available, culminating in the first version 1.0 stable release of the software on September 25.[1]

Features

Features of OpenSpecimen include[4]:

  • multi-site support
  • role-based access
  • inventory management
  • protocol management
  • shipping and tracking management
  • annotation support
  • statistical reporting

As of 2014, development of the platform is ongoing; for information on the most current release and all associated features, visit the project's website.

The following feature list(s) is/are derived solely from public, freely-available online information the vendor provides. A lack of a "Y" does not necessarily mean that the product doesn't have that feature. The lack of a "Y" could mean:
  • the vendor chose to not put relevant feature information online despite its existence in the product.
  • the vendor chooses to make the feature information available only to those who create an account or call/e-mail.
  • the feature information exists online to the public, but a URL could not be found to cite the existence of the feature.
  • the feature does not exist for the product.
A vendor's product may receive more confirmed features with the addition of more public information to the vendor's site and/or by providing a URL to a page or document that can act as a citation for the existence of the feature. Prospective buyers are highly recommended to contact the vendor directly to verify features as this list isn't authoritative, and product upgrades and changes happen rapidly in some cases.


Product: OpenSpecimen
Experiment, patient, and data management
Sample login and management?Y[5]
Sample tracking?Y[5]
Sample and/or result batching?Y[8]
Task and event scheduling?Y[9]
Option for manual result entry?Y[8]
Multiple data viewing methods?Y[10]
Configurable templates and forms?Y[5]
Data and trend analysis?
Data and equipment sharing?
Data mining?
Customizable fields and/or interface?Y[5]
Query capability?Y[5]
Import data?Y[11]
Internal file or data linking?
External file or data linking?
ELN support or integration?
Export data to MS Excel?Y[9]
Raw data management?
Data warehouse?
Project and/or task management?
Test, experiment, and/or trial management?Y[12]
Inventory management?Y[13]
Document and/or image management?Y[5]
Patient and case management?Y[14]
Workflow management?
Specification management?
Customer and physician management?Y[5]
Billing and revenue management?Y[5]
Quality, security, and compliance
Regulatory compliance?Y[9]
QA / QC functions?
Performance evaluation?
Audit trail?Y[15]
Chain of custody?
Configurable roles and security?Y[14]
Data normalization?
Data validation?
Data encryption?
Version control?
Automatic data backup?
Environmental monitoring?
Reporting, barcoding, and printing
Custom reporting?Y[9]
Synoptic reporting?
Report printing?Y[9]
Label support?Y[16]
Barcode and/or RFID support?Y[9]
Export to PDF?Y[9]
Export to MS Word?
Export to HTML and/or XML?
Fax integration?
Email integration?Y[9]
Base functionality
Administrator management?Y[14]
Modular?Y[5]
Instrument interfacing and management?
Mobile device integration?
Third-party software integration?Y[17]
Alarms and/or alerts?
Work-related time tracking?
Voice recognition system?
External monitoring?
Messaging?
Commenting?
Multilingual?
Network-capable?
Web client or portal?Y[8]
Online or integrated help?Y[5]
Software as a service delivery model?Y[4]
Usage-based cost?
Industries served
biotechnology, clinical, clinical research, life sciences, pathology, pharmaceutical, public health and service

Pricing

The Community edition is free and open-source, available under the BSD 3-Clause License.[2][3]

A dedicated OpenSpecimen trial version is also offered for 30 days, which is configured according to the end users' needs. OpenSpecimen experts guide the end-user through the installation, setup, and training process.

Pricing for the Silver Enterprise version is $10,000, while the Gold Enterprise is $20,000.

Packages and their features can be compared on the pricing page.

Hardware/software requirements

To install the free open-source Community version, the following are required:

  • Java 1.6
  • JBoss 5.1.0 GA
  • MySQL 5.1.x
  • Oracle 11g
  • ANT 1.7

For more about installation requirements and instructions, consult the documentation.

Videos, screenshots, and other media

  • A demo of OpenSpecimen can be found here

Entities using OpenSpecimen

Examples of organizations using OpenSpecimen include[4]:

Aga Khan University, Karachi, Pakistan; Children's Cancer Hospital, Cairo, Egypt; Edward Cancer Center, Illinois, U.S.; Johns Hopkins University, Maryland, U.S.; Sapien Biosciences, Hyderabad, India; St. Vincent's Hospital Melbourne, Australia; University of Leicester, U.K.; University of Michigan, U.S.; University of Nebraska, U.S.

See also

External links

References

  1. ↑ 1.0 1.1 "Release of os-v1.0". GitHub. https://github.com/krishagni/openspecimen/releases/tag/os-v1.0. Retrieved 17 October 2014. 
  2. ↑ 2.0 2.1 "Free & Open Source". Krishagni Solutions Pvt. Ltd. http://www.catissueplus.org/feature/free-open-source. Retrieved 17 October 2014. 
  3. ↑ 3.0 3.1 "openspecimen / LICENSE.md". GitHub. 24 September 2014. https://github.com/krishagni/openspecimen/blob/trunk/LICENSE.md. Retrieved 17 October 2014. 
  4. ↑ 4.0 4.1 4.2 4.3 4.4 "OpenSpecimen Professional Support Services". Krishagni Solutions Pvt. Ltd. http://www.catissueplus.org/pricing. Retrieved 17 October 2014. 
  5. ↑ 5.00 5.01 5.02 5.03 5.04 5.05 5.06 5.07 5.08 5.09 5.10 "caTissue Plus - Feature rich, Faster, Better UI". Krishagni Solutions Pvt. Ltd. Archived from the original on 05 November 2013. https://web.archive.org/web/20131105105123/http://www.catissueplus.org/plus. Retrieved 08 May 2013. 
  6. ↑ "OpenSpecimen". OpenSpecimen Support Center. Krishagni Solutions Pvt. Ltd. 21 July 2014. https://catissueplus.atlassian.net/wiki/display/CAT/OpenSpecimen. Retrieved 16 September 2014. 
  7. ↑ "Release OS-v1.0_RC1". GitHub. https://github.com/krishagni/openspecimen/releases/tag/OS-v1.0_RC1. Retrieved 17 October 2014. 
  8. ↑ 8.0 8.1 8.2 "OpenSpecimen - Rapid Data Entry". Krishagni Solutions Pvt. Ltd. http://www.catissueplus.org/feature/rapid-data-entry. Retrieved 16 September 2014. 
  9. ↑ 9.0 9.1 9.2 9.3 9.4 9.5 9.6 9.7 "OpenSpecimen - Data Retrieval and Reporting". Krishagni Solutions Pvt. Ltd. http://www.catissueplus.org/feature/data-retrieval-and-reporting. Retrieved 16 September 2014. 
  10. ↑ "OpenSpecimen - Specimen Catalog". Krishagni Solutions Pvt. Ltd. https://catissueplus.atlassian.net/wiki/x/c4Ah. Retrieved 9 October 2014. 
  11. ↑ "OpenSpecimen - Bulk Upload Excel". Krishagni Solutions Pvt. Ltd. http://www.catissueplus.org/feature/bulk-upload-excel. Retrieved 16 September 2014. 
  12. ↑ "OpenSpecimen - Annotations". Krishagni Solutions Pvt. Ltd. http://www.catissueplus.org/feature/annotations. Retrieved 16 September 2014. 
  13. ↑ "OpenSpecimen - Storage Utilization". Krishagni Solutions Pvt. Ltd. https://catissueplus.atlassian.net/wiki/x/BwCcAQ. Retrieved 9 October 2014. 
  14. ↑ 14.0 14.1 14.2 "OpenSpecimen - Multi-Site Support". Krishagni Solutions Pvt. Ltd. http://www.catissueplus.org/feature/multi-site-support. Retrieved 16 September 2014.  Cite error: Invalid <ref> tag; name "OSRole" defined multiple times with different content
  15. ↑ "OpenSpecimen - Audit Trail". Krishagni Solutions Pvt. Ltd. https://catissueplus.atlassian.net/wiki/x/QICxAQ. Retrieved 9 October 2014. 
  16. ↑ "OpenSpecimen - Label Generation and Printing". Krishagni Solutions Pvt. Ltd. https://catissueplus.atlassian.net/wiki/x/PIAh. Retrieved 9 October 2014. 
  17. ↑ "OpenSpecimen - Programmatic Access (API)". Krishagni Solutions Pvt. Ltd. http://www.catissueplus.org/feature/programmatic-access-api. Retrieved 16 September 2014. 
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