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  • 21:44, 14 April 2026 Lorikrammer talk contribs deleted page White paper (content was: "center|1800x1800px center|1680x1680px", and the only contributor was "Twang9" (talk))
  • 21:44, 14 April 2026 Lorikrammer talk contribs created page White Paper (Created page with "center|1800x1800px center|1680x1680px")
  • 21:43, 14 April 2026 Lorikrammer talk contribs deleted page Sop (content was: "#REDIRECT SOP", and the only contributor was "Twang9" (talk))
  • 21:42, 14 April 2026 Lorikrammer talk contribs deleted page Quick start (content was: "== '''Creating a BCO on Galaxy''' == Galaxy has an extensive workflow system. They define a [https://galaxyproject.org/learn/advanced-workflow/ workflow] as “.. a series of tools and dataset actions that run in sequence as a batch operation”. An instance of a Galaxy workflow is known as an “invocation”. Since a BCO is a record of a specific instance of computation, the G...", and the only contributor was "Twang9" (talk))
  • 21:41, 14 April 2026 Lorikrammer talk contribs created page Creating a BCO on Galaxy (Created page with "== '''Creating a BCO on Galaxy''' == Galaxy has an extensive workflow system. They define a [https://galaxyproject.org/learn/advanced-workflow/ workflow] as “.. a series of tools and dataset actions that run in sequence as a batch operation”. An instance of a Galaxy workflow is known as an “invocation”. Since a BCO is a record of a specific instance of computation, the Galaxy invocations are used to generate the Galaxy BCOs. The first step in creating a well-doc...")
  • 21:39, 14 April 2026 Lorikrammer talk contribs deleted page Publication (content was: "#REDIRECT Publications", and the only contributor was "Soiland-Reyes" (talk))
  • 21:38, 14 April 2026 Lorikrammer talk contribs deleted page Galaxy workflow converter (content was: "Workflows can be directly downloaded from Galaxy but file conversion is needed in order to transfer into BCODB successfully. Please follow the following steps to convert the file and validation: == File conversion == # Download the converter [https://github.com/FDA-ARGOS/data.argosdb/blob/main/lib/galaxy%20converter.py script] from GitHub. # On the local terminal, run the followi...", and the only contributor was "Twang9" (talk))
  • 21:38, 14 April 2026 Lorikrammer talk contribs created page Galaxy Workflow Converter (Created page with "Workflows can be directly downloaded from Galaxy but file conversion is needed in order to transfer into BCODB successfully. Please follow the following steps to convert the file and validation: == File conversion == # Download the converter [https://github.com/FDA-ARGOS/data.argosdb/blob/main/lib/galaxy%20converter.py script] from GitHub. # On the local terminal, run the following command <code>python [converter script's name.py] -b [path to the file that needs to be co...")
  • 21:38, 14 April 2026 Lorikrammer talk contribs deleted page External-references (content was: "'''Go back to BCO Domains.''' == 3.2 Appendix-II: External reference database list == This list contains the databases that are currently being used in our BCOs. We use the CURIEs that map to URIs maintained by http://identifiers.org/ Identifiers.org is an established resolving system that enables the referencing of data for the scientific community, with a current focus on the Life Sciences domain. Identifiers.org provides direct access to the identified data using o...")
  • 21:38, 14 April 2026 Lorikrammer talk contribs created page External References (Created page with "'''Go back to BCO Domains.''' == 3.2 Appendix-II: External reference database list == This list contains the databases that are currently being used in our BCOs. We use the CURIEs that map to URIs maintained by http://identifiers.org/ Identifiers.org is an established resolving system that enables the referencing of data for the scientific community, with a current focus on the Life Sciences domain. Identifiers.org provides direct access to the identified data...")
  • 21:37, 14 April 2026 Lorikrammer talk contribs deleted page Extension-scm (content was: "'''Go back to BCO Domains.''' == Extension to External References: Software Configuration Management (SCM) == The external references '''example''' extension to a SCM repository demonstrates how a BioCompute Object software source code can be stored/deposited/downloaded. The BCO would contain links to the SCM repository where the information is stored and easily retrieved. The links to the SCM can be added to the usability domain as well. "extension_domain":{...")
  • 21:36, 14 April 2026 Lorikrammer talk contribs created page SCM Extension (Created page with "'''Go back to BCO Domains.''' == Extension to External References: Software Configuration Management (SCM) == The external references '''example''' extension to a SCM repository demonstrates how a BioCompute Object software source code can be stored/deposited/downloaded. The BCO would contain links to the SCM repository where the information is stored and easily retrieved. The links to the SCM can be added to the usability domain as well. "extension_domain":{...")
  • 21:36, 14 April 2026 Lorikrammer talk contribs deleted page Extension-fhir (content was: "'''Go back to BCO Domains.''' == Extension to External References: SMART on FHIR Genomics == The external references example extension to FHIR resource demonstrates how specific data elements can be extracted from EHR systems or other secure FHIR endpoints via technologies such as SMART on FHIR Genomics (https://www.ncbi.nlm.nih.gov/pubmed/26198304) without compromising patient and providers’ information. This is because the portions being transferred contain no identif...")
  • 21:35, 14 April 2026 Lorikrammer talk contribs created page FHIR Extension (Created page with "'''Go back to BCO Domains.''' == Extension to External References: SMART on FHIR Genomics == The external references example extension to FHIR resource demonstrates how specific data elements can be extracted from EHR systems or other secure FHIR endpoints via technologies such as SMART on FHIR Genomics (https://www.ncbi.nlm.nih.gov/pubmed/26198304) without compromising patient and providers’ information. This is because the portions being transferred contain no...")
  • 21:34, 14 April 2026 Lorikrammer talk contribs deleted page Contact us (content was: "Go back to Prefix Registration The best way to get help for any issues is go to '''Contact Us''' on the bottom of the BioCompute web page for a quick response and '''Report Bug or request feature''' for a less immediate problem.800px|thumb|center ''<u><big>'''Note a few suggested key points to include in a message:'''</big></u>'' *Issue location and ID if possible (e.g. provide a specific draft URL:https://www.biocomputeobject.org/builder/https/bioco...")
  • 21:34, 14 April 2026 Lorikrammer talk contribs created page Contact Us (Created page with "Go back to Prefix Registration The best way to get help for any issues is go to '''Contact Us''' on the bottom of the BioCompute web page for a quick response and '''Report Bug or request feature''' for a less immediate problem.800px|thumb|center ''<u><big>'''Note a few suggested key points to include in a message:'''</big></u>'' *Issue location and ID if possible (e.g. provide a specific draft URL:https://www.biocomputeobject.org/builder/http...")
  • 21:34, 14 April 2026 Lorikrammer talk contribs deleted page Common errors (content was: "Return to the tutorial. Here is showing a list of common errors that a user might encounter while creating a BCO, please see possible solutions below: #Description Domain: autogenerated step numbers are incorrect or not in sequential order most times. #* Solution: Manually change the step numbers starting to 1, 2, 3…… #Description Domain: manually entered s...", and the only contributor was "Twang9" (talk))
  • 21:33, 14 April 2026 Lorikrammer talk contribs created page Common Errors (Created page with "Return to the tutorial. Here is showing a list of common errors that a user might encounter while creating a BCO, please see possible solutions below: #Description Domain: autogenerated step numbers are incorrect or not in sequential order most times. #* Solution: Manually change the step numbers starting to 1, 2, 3…… #Description Domain: manually entered step numbers could be considered as strings during validation, which need to be integers. See...")
  • 21:33, 14 April 2026 Lorikrammer talk contribs deleted page BioCompute Spring Workshop 2024 (content was: "#REDIRECT BioCompute Conference and Workshop '''2024 BioCompute Conference and Workshop''' ''<big>This workshop provides an opportunity to learn about the most up-to-date updates of BioCompute Objects and interoperability between 3 platforms that host BioCompute Objects (BCO). It will also cover BCODB and Portal's use at the FDA, real-world applications, and potential AL/ML-related BCO implementations. We encourage everyone to attend in person for hands-on experience and d...")
  • 21:31, 14 April 2026 Lorikrammer talk contribs deleted page Prefix registration (content was: "To create a Prefix, see the following steps: # Go to '''Prefix Registry''' on the Navigation Bar:center|thumb|800x800px #On the '''Prefix Registry''' page, users can achieve both prefix search and prefix registration functionalities. #*'''Prefix Search:''' users can search prefixes in three ways: '''My Prefixes''', '''Return all''', and '''Searc...", and the only contributor was "Twang9" (talk))
  • 21:31, 14 April 2026 Lorikrammer talk contribs created page Prefix Registration (Created page with "To create a Prefix, see the following steps: # Go to '''Prefix Registry''' on the Navigation Bar:center|thumb|800x800px #On the '''Prefix Registry''' page, users can achieve both prefix search and prefix registration functionalities. #*'''Prefix Search:''' users can search prefixes in three ways: '''My Prefixes''', '''Return all''', and '''Search Prefix Name.''' Select the desired searching option. If chose '''Search Prefix Name''', the...")
  • 21:30, 14 April 2026 Lorikrammer talk contribs deleted page Account registration (content was: "==Account Registration== Before building a BioCompute Object (BCO), please register an account first by following the listed steps: # Go to '''Log in''' on the header:center|thumb|804x804px #For first-time users, please click on “'''Don’t have an account? Sign up'''”, fill out the required information and click '''SUBMIT'''. File:May 2023 Ac...", and the only contributor was "Twang9" (talk))
  • 21:30, 14 April 2026 Lorikrammer talk contribs created page Account Registration (Created page with "==Account Registration== Before building a BioCompute Object (BCO), please register an account first by following the listed steps: # Go to '''Log in''' on the header:center|thumb|804x804px #For first-time users, please click on “'''Don’t have an account? Sign up'''”, fill out the required information and click '''SUBMIT'''. thumb|centerGoogle authentication is also enabled on BioCompute. Users c...")
  • 21:29, 14 April 2026 Lorikrammer talk contribs deleted page User guide (content was: "'''Go Back to BioCompute Objects.''' == Quick Links == *BioCompute Cheat Sheet *Introduction to BioCompute Objects *BCO Domains *General User Tutorial *[https://standards.ieee.org/ieee/2791/7337/ IEEE-2791-2020: IEEE Standard for Bioinformatics Computations and Analyses Generated by High-Throughput Sequencing (HTS) to Facilitate Communication] *BCO Portal Local Deployment|API Tutorial: BCO Portal Local Deploymen...")
  • 21:28, 14 April 2026 Lorikrammer talk contribs created page User Guide (Created page with "'''Go Back to BioCompute Objects.''' == Quick Links == *BioCompute Cheat Sheet *Introduction to BioCompute Objects *BCO Domains *General User Tutorial *[https://standards.ieee.org/ieee/2791/7337/ IEEE-2791-2020: IEEE Standard for Bioinformatics Computations and Analyses Generated by High-Throughput Sequencing (HTS) to Facilitate Communication] *BCO Portal Local Deployment|API Tutorial: BCO Portal Local De...")
  • 21:27, 14 April 2026 Lorikrammer talk contribs deleted page Top-level (content was: "'''Go back to BCO Domains.''' == Top Level Fields == These header fields uniquely define this BCO. These fields are required for every BCO and are represented at the top level object. Condensed example: { "object_id": "https://example.com/BCO_948701/1.0", "spec_version" : "https://w3id.org/ieee/ieee-2791-schema/2791object.json", "etag": "d41d8cd98f00b204e9800998ecf8427e", "provenance_domain": { },...")
  • 21:26, 14 April 2026 Lorikrammer talk contribs created page Top Level Fields (Created page with "'''Go back to BCO Domains.''' == Top Level Fields == These header fields uniquely define this BCO. These fields are required for every BCO and are represented at the top level object. Condensed example: { "object_id": "https://example.com/BCO_948701/1.0", "spec_version" : "https://w3id.org/ieee/ieee-2791-schema/2791object.json", "etag": "d41d8cd98f00b204e9800998ecf8427e", "provenance_domain": {...")
  • 21:25, 14 April 2026 Lorikrammer talk contribs deleted page Best practices (content was: "== General == *The required domains are defined by the IEEE. However, a BioCompute Object is considered complete when an Error Domain exists. *Versioning is allowed, but only if the changes do not affect the workflow or output. BCO versioning follows a minor.patch schema, no major versions are allowed (substantial changes result in a new BCO). Minor changes are things like a cha...", and the only contributor was "Twang9" (talk))
  • 21:24, 14 April 2026 Lorikrammer talk contribs deleted page Error-domain (content was: "'''Go back to BCO Domains.''' == Error Domain (''error_domain)'' == This section, also known as the ''acceptable range of variability'', is an optional domain comprised of two subdomains: empirical and algorithmic. The error domain IEEE schema and definition can be found [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/blob/master/error_domain.json here]. The possible keys within each subdomain are workflow-specific, human-readable free text. For data integrat...")
  • 21:23, 14 April 2026 Lorikrammer talk contribs created page Error Domain (Created page with "'''Go back to BCO Domains.''' == Error Domain (''error_domain)'' == This section, also known as the ''acceptable range of variability'', is an optional domain comprised of two subdomains: empirical and algorithmic. The error domain IEEE schema and definition can be found [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/blob/master/error_domain.json here]. The possible keys within each subdomain are workflow-specific, human-readable free text. For data i...")
  • 21:22, 14 April 2026 Lorikrammer talk contribs deleted page Parametric-domain (content was: "'''Go back to BCO Domains.''' == Parametric Domain (parametric_domain) == This optional domain represents the list of parameters customizing the computational flow which can affect the output of the calculations. These fields can be custom to each kind of analysis and are tied to a particular pipeline implementation. The provenance domain IEEE schema and definition can be found [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/blob/master/parametric_domain.json?...")
  • 21:22, 14 April 2026 Lorikrammer talk contribs created page Parametric Domain (Created page with "'''Go back to BCO Domains.''' == Parametric Domain (parametric_domain) == This optional domain represents the list of parameters customizing the computational flow which can affect the output of the calculations. These fields can be custom to each kind of analysis and are tied to a particular pipeline implementation. The provenance domain IEEE schema and definition can be found [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/blob/master/parametric_domai...")
  • 21:21, 14 April 2026 Lorikrammer talk contribs deleted page Execution-domain (content was: "'''Go back to BCO Domains.''' == Execution Domain (''execution_domain'') == This section defines the ''execution_domain'' part of the BCO. The execution domain IEEE schema, and definition can be found [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/blob/master/execution_domain.json here]. The fields required for the execution of the BCO have been encapsulated together in order to clearly separate information needed for deployment, software conf...")
  • 21:19, 14 April 2026 Lorikrammer talk contribs created page Execution Domain (Created page with "'''Go back to BCO Domains.''' == Execution Domain (''execution_domain'') == This section defines the ''execution_domain'' part of the BCO. The execution domain IEEE schema, and definition can be found [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/blob/master/execution_domain.json here]. The fields required for the execution of the BCO have been encapsulated together in order to clearly separate information needed for deployment, softwa...")
  • 21:19, 14 April 2026 Lorikrammer talk contribs deleted page Description-domain (content was: "'''Go back to BCO Domains.''' == Description Domain (''description_domain'') == This section defines the fields of the ''description_domain'' part of the BCO structure. The description domain IEEE schema and definition can be found [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/blob/master/description_domain.json here]. Structured field for description of external references, the pipeline steps, and the relationship of I/O objects. Information...")
  • 21:17, 14 April 2026 Lorikrammer talk contribs created page Description Domain (Created page with "'''Go back to BCO Domains.''' == Description Domain (''description_domain'') == This section defines the fields of the ''description_domain'' part of the BCO structure. The description domain IEEE schema and definition can be found [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/blob/master/description_domain.json here]. Structured field for description of external references, the pipeline steps, and the relationship of I/O objects. Info...")
  • 21:17, 14 April 2026 Lorikrammer talk contribs deleted page Extension-domain (content was: "'''Go back to BCO Domains.''' == Extension Domain ''(extension_domain)'' == The ''extension_domain'' is a space for a user to add additional structured information that is not defined in the BioCompute schema. It is '''optional'''. While the extension domain is not defined by IEEE-2791-2020, each extension in this domain must provide a reference to the schema that defines it in order to validate. The extension domain allows a user to define additional fields and is the pl...")
  • 21:16, 14 April 2026 Lorikrammer talk contribs created page Extension Domain (Created page with "'''Go back to BCO Domains.''' == Extension Domain ''(extension_domain)'' == The ''extension_domain'' is a space for a user to add additional structured information that is not defined in the BioCompute schema. It is '''optional'''. While the extension domain is not defined by IEEE-2791-2020, each extension in this domain must provide a reference to the schema that defines it in order to validate. The extension domain allows a user to define additional fields and is...")
  • 21:15, 14 April 2026 Lorikrammer talk contribs deleted page Usability-domain (content was: "'''Go back to BCO Domains.''' == Usability Domain ''(usability_domain)'' == This section defines the ''usability_domain'' part of the BCO structure. The associated IEEE schema that contains the definition can be found [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/blob/master/usability_domain.json here]. The usability domain provides a specific scientific use case and a description of the function of the BCO. Condensed example: <pre> "us...")
  • 21:13, 14 April 2026 Lorikrammer talk contribs created page Usability Domain (Created page with "'''Go back to BCO Domains.''' == Usability Domain ''(usability_domain)'' == This section defines the ''usability_domain'' part of the BCO structure. The associated IEEE schema that contains the definition can be found [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/blob/master/usability_domain.json here]. The usability domain provides a specific scientific use case and a description of the function of the BCO. Condensed example: <pre>...")
  • 21:12, 14 April 2026 Lorikrammer talk contribs deleted page Faq (content was: "#REDIRECT FAQs '''Go back to BioCompute Objects.''' == Events == 1. '''Are there any upcoming event related to BioCompute Objects?''' Yes, there will be a mini symposium at the FDA on May 10th. Both FDA and regulated industry representatives will participate in mapping the way forward for using BCOs in submissions and establishing best practices. More information can be found here 2. '''Do I need to register...")
  • 21:12, 14 April 2026 Lorikrammer talk contribs deleted page Bco faq (content was: "#REDIRECT Faq", and the only contributor was "Twang9" (talk))
  • 21:08, 14 April 2026 Lorikrammer talk contribs deleted page Bco-domains (content was: "'''Go back to BioCompute Objects.''' === BioCompute Objects Visualization === An Observable documentation showing a visualization of a BCO object workflow can be found [https://observablehq.com/@neurogenomics/biocompute-objects-visualization-student-workflows here]. === Top Level Fields === The top-level JSON object of a BCO includes attributes to define the BCO itself. The remaining top-level fields detail different domains of the BCO, as liste...")
  • 21:08, 14 April 2026 Lorikrammer talk contribs deleted page Provenance-domain (content was: "#REDIRECT Provenance Domain '''Go back to BCO domains.''' == Provenance Domain (''provenance_domain'') == This section defines the fields of the provenance_domain part of the BCO structure. The provenance domain IEEE schema and definition can be found [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/blob/master/provenance_domain.json here]. Condensed example: <pre> "provenance_domain": { "name": "HCV1a ledipasvir...")
  • 21:05, 14 April 2026 Lorikrammer talk contribs deleted page Buildbcos (content was: " #Click on '''BCO Builder''' icon on the Navigation Bar:center|thumb|1056x1056px #To begin filling out the BCO, click on '''Provenance Domain''' to expand the section. Fill out the information as needed. Red boxes are required fields, and plain boxes are optional fields. Click '''next''' to advancing to the next section.center|thumb|1054x1054px #For information to fill out each domain, please refer to these links: Provenance-domain|Provenance...")
  • 21:05, 14 April 2026 Lorikrammer talk contribs created page Build a BCO (Created page with " #Click on '''BCO Builder''' icon on the Navigation Bar:center|thumb|1056x1056px #To begin filling out the BCO, click on '''Provenance Domain''' to expand the section. Fill out the information as needed. Red boxes are required fields, and plain boxes are optional fields. Click '''next''' to advancing to the next section.center|thumb|1054x1054px #For information to fill out each domain, please refer to these links: Provenance-domain|Pro...")
  • 20:47, 14 April 2026 Lorikrammer talk contribs deleted page Bhco-domains (content was: "#REDIRECT Bco-domains", and the only contributor was "Twang9" (talk))
  • 20:45, 14 April 2026 Lorikrammer talk contribs created page BCO Domains (Created page with "a") Tag: Visual edit
  • 19:51, 27 March 2026 Lorikrammer talk contribs deleted page 현금홀덤사이트711 (content was: "To excel at on the internet poker, it's essential to have a casino game plan and stay with it. This Particular means remaining disciplined, managing your bankroll effectively, and continually enhancing ones skills through practice and study. [https://holdem.world/현금홀덤사이트/ 현금홀덤사이트] Anothe...", and the only contributor was "HowTogetqualitybacklinksfree" (talk))
  • 19:51, 27 March 2026 Lorikrammer talk contribs deleted page 현금홀덤사이트 (content was: "Overall, it is clear your internet poker is here to keep. Featuring its convenience, variety, flexibility, and sense of community, online poker offers something for everyone. As tech continues to advance, we can expect on-line poker to only grow inside popularity and start to become an even more integral part of th...", and the only contributor was "HowTogetqualitybacklinksfree" (talk))
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