https://wiki.biocomputeobject.org/index.php?action=history&feed=atom&title=Quick_Start_GuideQuick Start Guide - Revision history2026-05-20T05:56:06ZRevision history for this page on the wikiMediaWiki 1.38.2https://wiki.biocomputeobject.org/index.php?title=Quick_Start_Guide&diff=1164&oldid=prevChristie.woodside at 18:36, 29 January 20262026-01-29T18:36:13Z<p></p>
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<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">'''Go back to the [[Main Page|BioCompute Main Page]].''' </ins></div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of viewing: the [https://wiki.biocomputeobject.org/index.php?title=File:Tree.png Tree view], [https://wiki.biocomputeobject.org/index.php?title=File:Raw.png Raw view] and Collapsible view. </div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of viewing: the [https://wiki.biocomputeobject.org/index.php?title=File:Tree.png Tree view], [https://wiki.biocomputeobject.org/index.php?title=File:Raw.png Raw view] and Collapsible view. </div></td></tr>
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</table>Christie.woodsidehttps://wiki.biocomputeobject.org/index.php?title=Quick_Start_Guide&diff=613&oldid=prevChinweokeO: /* How to create a BCO */2024-03-12T19:11:05Z<p><span dir="auto"><span class="autocomment">How to create a BCO</span></span></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 19:11, 12 March 2024</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Execution-domain Execution Domain]: This domain covers the actual running of processes, scripts, or software applications, ensuring they perform as intended.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Execution-domain Execution Domain]: This domain covers the actual running of processes, scripts, or software applications, ensuring they perform as intended.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Error-domain Error Domain]: It pertains to the acceptable range of variation in analysis results, showing what errors can arise outside the tolerance levels of certain inputs and outputs, helping to optimize algorithms. [[File:Screenshot 2023-09-18 124635.jpg|center|thumb|775x775px]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Error-domain Error Domain]: It pertains to the acceptable range of variation in analysis results, showing what errors can arise outside the tolerance levels of certain inputs and outputs, helping to optimize algorithms. [[File:Screenshot 2023-09-18 124635.jpg|center|thumb|775x775px]]</div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>#Saving and <del style="font-weight: bold; text-decoration: none;">Publishing</del>: Before publishing, review and save the BCO to ensure accuracy of the information that you have entered into your BCO and that your data is not lost. Once you are certain that your documentation is complete, you can proceed to publish the BCO, making it accessible to collaborators or the community if desired.</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>#Saving and <ins style="font-weight: bold; text-decoration: none;">Validating BCO</ins>: Before publishing, review and save the BCO to ensure accuracy of the information that you have entered into your BCO and that your data is not lost. <ins style="font-weight: bold; text-decoration: none;">This will require validating the BCO under 'BCO Tools'. You can also validate your BCO on a JSON Schema validator against this [https://opensource.ieee.org/2791-object/ieee-2791-schema/-/raw/master/2791object.json?ref_type=heads schema]. Once the BCO is validated you can proceed to publishing your BCO. </ins></div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">#Publishing: </ins>Once you are certain that your documentation is complete, you can proceed to publish the BCO, making it accessible to collaborators or the community if desired.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==Where do I go to search for an existing BCO==</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==Where do I go to search for an existing BCO==</div></td></tr>
</table>ChinweokeOhttps://wiki.biocomputeobject.org/index.php?title=Quick_Start_Guide&diff=456&oldid=prevChinweokeO at 19:15, 10 October 20232023-10-10T19:15:26Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 19:15, 10 October 2023</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1">Line 1:</td>
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<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of viewing: the Tree view, Raw view and Collapsible view. </div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of viewing: the <ins style="font-weight: bold; text-decoration: none;">[https://wiki.biocomputeobject.org/index.php?title=File:Tree.png </ins>Tree view<ins style="font-weight: bold; text-decoration: none;">]</ins>, <ins style="font-weight: bold; text-decoration: none;">[https://wiki.biocomputeobject.org/index.php?title=File:Raw.png </ins>Raw view<ins style="font-weight: bold; text-decoration: none;">] </ins>and Collapsible view. </div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The portal website at https://biocomputeobject.org/ has a plethora of documentation and resources including the [https://wiki.biocomputeobject.org/index.php?title=Main_Page BioCompute Wiki]. The purpose of this quick start guide is to give you a concise starting point.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The portal website at https://biocomputeobject.org/ has a plethora of documentation and resources including the [https://wiki.biocomputeobject.org/index.php?title=Main_Page BioCompute Wiki]. The purpose of this quick start guide is to give you a concise starting point.</div></td></tr>
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</table>ChinweokeOhttps://wiki.biocomputeobject.org/index.php?title=Quick_Start_Guide&diff=453&oldid=prevChinweokeO at 18:36, 26 September 20232023-09-26T18:36:15Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 18:36, 26 September 2023</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#Downloading and Viewing BCOs: '''On the builder page''', you have the option to download BCOs directly to your local device as JSON files to be viewed offline at your convenience. If you have BCOs stored that you would like to bring to the BioCompute platform, you can easily upload them seamlessly from your device for further editing, sharing, or collaboration. This functionality enhances your workflow by providing flexibility and accessibility to your BCOs from anywhere, at any time.[[File:Screenshot (393).png|center|thumb|940x940px]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#Downloading and Viewing BCOs: '''On the builder page''', you have the option to download BCOs directly to your local device as JSON files to be viewed offline at your convenience. If you have BCOs stored that you would like to bring to the BioCompute platform, you can easily upload them seamlessly from your device for further editing, sharing, or collaboration. This functionality enhances your workflow by providing flexibility and accessibility to your BCOs from anywhere, at any time.[[File:Screenshot (393).png|center|thumb|940x940px]]</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>__FORCETOC__</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>__FORCETOC__</div></td></tr>
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</table>ChinweokeOhttps://wiki.biocomputeobject.org/index.php?title=Quick_Start_Guide&diff=452&oldid=prevChinweokeO at 18:35, 26 September 20232023-09-26T18:35:41Z<p></p>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#Downloading and Viewing BCOs: '''On the builder page''', you have the option to download BCOs directly to your local device as JSON files to be viewed offline at your convenience. If you have BCOs stored that you would like to bring to the BioCompute platform, you can easily upload them seamlessly from your device for further editing, sharing, or collaboration. This functionality enhances your workflow by providing flexibility and accessibility to your BCOs from anywhere, at any time.[[File:Screenshot (393).png|center|thumb|940x940px]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#Downloading and Viewing BCOs: '''On the builder page''', you have the option to download BCOs directly to your local device as JSON files to be viewed offline at your convenience. If you have BCOs stored that you would like to bring to the BioCompute platform, you can easily upload them seamlessly from your device for further editing, sharing, or collaboration. This functionality enhances your workflow by providing flexibility and accessibility to your BCOs from anywhere, at any time.[[File:Screenshot (393).png|center|thumb|940x940px]]</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>__FORCETOC__</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>__FORCETOC__</div></td></tr>
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</table>ChinweokeOhttps://wiki.biocomputeobject.org/index.php?title=Quick_Start_Guide&diff=451&oldid=prevChinweokeO at 18:35, 26 September 20232023-09-26T18:35:13Z<p></p>
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<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of <del style="font-weight: bold; text-decoration: none;">[https://wiki.biocomputeobject.org/index.php?title=File:Screenshot_2023-09-18_124635.jpg </del>viewing<del style="font-weight: bold; text-decoration: none;">]</del>: the Tree view, Raw view and Collapsible view. </div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of viewing: the Tree view, Raw view and Collapsible view. </div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The portal website at https://biocomputeobject.org/ has a plethora of documentation and resources including the [https://wiki.biocomputeobject.org/index.php?title=Main_Page BioCompute Wiki]. The purpose of this quick start guide is to give you a concise starting point.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The portal website at https://biocomputeobject.org/ has a plethora of documentation and resources including the [https://wiki.biocomputeobject.org/index.php?title=Main_Page BioCompute Wiki]. The purpose of this quick start guide is to give you a concise starting point.</div></td></tr>
</table>ChinweokeOhttps://wiki.biocomputeobject.org/index.php?title=Quick_Start_Guide&diff=450&oldid=prevChinweokeO at 18:27, 26 September 20232023-09-26T18:27:00Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 18:27, 26 September 2023</td>
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<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of viewing: the Tree view, Raw view and Collapsible view. </div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of <ins style="font-weight: bold; text-decoration: none;">[https://wiki.biocomputeobject.org/index.php?title=File:Screenshot_2023-09-18_124635.jpg </ins>viewing<ins style="font-weight: bold; text-decoration: none;">]</ins>: the Tree view, Raw view and Collapsible view. </div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The portal website at https://biocomputeobject.org/ has a plethora of documentation and resources including the [https://wiki.biocomputeobject.org/index.php?title=Main_Page BioCompute Wiki]. The purpose of this quick start guide is to give you a concise starting point.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The portal website at https://biocomputeobject.org/ has a plethora of documentation and resources including the [https://wiki.biocomputeobject.org/index.php?title=Main_Page BioCompute Wiki]. The purpose of this quick start guide is to give you a concise starting point.</div></td></tr>
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</table>ChinweokeOhttps://wiki.biocomputeobject.org/index.php?title=Quick_Start_Guide&diff=449&oldid=prevChinweokeO at 18:25, 26 September 20232023-09-26T18:25:13Z<p></p>
<table style="background-color: #fff; color: #202122;" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 18:25, 26 September 2023</td>
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<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of viewing: the Tree view, Raw view and Collapsible view<del style="font-weight: bold; text-decoration: none;">**</del>. </div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of viewing: the Tree view, Raw view and Collapsible view. </div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The portal website at https://biocomputeobject.org/ has a plethora of documentation and resources including the [https://wiki.biocomputeobject.org/index.php?title=Main_Page BioCompute Wiki]. The purpose of this quick start guide is to give you a concise starting point.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The portal website at https://biocomputeobject.org/ has a plethora of documentation and resources including the [https://wiki.biocomputeobject.org/index.php?title=Main_Page BioCompute Wiki]. The purpose of this quick start guide is to give you a concise starting point.</div></td></tr>
</table>ChinweokeOhttps://wiki.biocomputeobject.org/index.php?title=Quick_Start_Guide&diff=448&oldid=prevChinweokeO: /* How to create a BCO */2023-09-25T20:03:35Z<p><span dir="auto"><span class="autocomment">How to create a BCO</span></span></p>
<table style="background-color: #fff; color: #202122;" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 20:03, 25 September 2023</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#[https://wiki.biocomputeobject.org/index.php?title=Buildbcos Starting a New BCO]: To create a new BCO, click on the BCO tools icon shown in the top right corner. From the drop-down menu, select the ‘Builder’ icon. This will direct you to a page with the different domains on the left side of the screen.[[File:Screenshot (394).png|center|thumb|932x932px]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#[https://wiki.biocomputeobject.org/index.php?title=Buildbcos Starting a New BCO]: To create a new BCO, click on the BCO tools icon shown in the top right corner. From the drop-down menu, select the ‘Builder’ icon. This will direct you to a page with the different domains on the left side of the screen.[[File:Screenshot (394).png|center|thumb|932x932px]]</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#Defining workflows and Analysis: When creating a BioCompute Object (BCO) there are various domains that will require attention as each of them serve as a specific purpose in documentation to maintain accuracy and comprehensiveness. There are eight top-level domains, only five of which are required: '''Provenance domain, Usability domain, Description domain, Input and Output Domain, and Execution domain'''. For more detail on the different domains go [https://wiki.biocomputeobject.org/index.php?title=Bco-domains here].</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#Defining workflows and Analysis: When creating a BioCompute Object (BCO) there are various domains that will require attention as each of them serve as a specific purpose in documentation to maintain accuracy and comprehensiveness. There are eight top-level domains, only five of which are required: '''Provenance domain, Usability domain, Description domain, Input and Output Domain, and Execution domain'''. For more detail on the different domains go [https://wiki.biocomputeobject.org/index.php?title=Bco-domains here].</div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Provenance-domain Provenance Domain]:</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Provenance-domain Provenance Domain]: <ins style="font-weight: bold; text-decoration: none;">This domain deals with tracking the history and lineage of data and processes, including authors and contributors involved in an analysis.</ins></div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Usability-domain Usability Domain]:</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Usability-domain Usability Domain]: <ins style="font-weight: bold; text-decoration: none;">It focuses on the purpose of the analysis allowing goals of an analysis to be easily understood when using the BCO.</ins></div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Description-domain Description Domain]:</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Description-domain Description Domain]: <ins style="font-weight: bold; text-decoration: none;">This domain provides information and context about data and processes of an analysis, helping users understand what they are working with.</ins></div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Extension-domain Extension Domain]:</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Extension-domain Extension Domain] <ins style="font-weight: bold; text-decoration: none;">(Optional)</ins>: <ins style="font-weight: bold; text-decoration: none;">This domain identifies additional schema extensions that may be required.</ins></div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Parametric-domain Parametric Domain]:</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Parametric-domain Parametric Domain]: <ins style="font-weight: bold; text-decoration: none;">This domain involves defining and managing parameters or variables that influence the behavior of an analysis.</ins></div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Iodomain Input and Output (I/O) Domain]</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Iodomain Input and Output (I/O) Domain]<ins style="font-weight: bold; text-decoration: none;">: It deals with the input data involved in the process of an analysis and the corresponding output or results generated.</ins></div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Execution-domain Execution Domain]</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Execution-domain Execution Domain]<ins style="font-weight: bold; text-decoration: none;">: This domain covers the actual running of processes, scripts, or software applications, ensuring they perform as intended.</ins></div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Error-domain Error Domain] [[File:Screenshot 2023-09-18 124635.jpg|center|thumb|775x775px]]</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>#*[https://wiki.biocomputeobject.org/index.php?title=Error-domain Error Domain]<ins style="font-weight: bold; text-decoration: none;">: It pertains to the acceptable range of variation in analysis results, showing what errors can arise outside the tolerance levels of certain inputs and outputs, helping to optimize algorithms. </ins>[[File:Screenshot 2023-09-18 124635.jpg|center|thumb|775x775px]]</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#Saving and Publishing: Before publishing, review and save the BCO to ensure accuracy of the information that you have entered into your BCO and that your data is not lost. Once you are certain that your documentation is complete, you can proceed to publish the BCO, making it accessible to collaborators or the community if desired.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#Saving and Publishing: Before publishing, review and save the BCO to ensure accuracy of the information that you have entered into your BCO and that your data is not lost. Once you are certain that your documentation is complete, you can proceed to publish the BCO, making it accessible to collaborators or the community if desired.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
</table>ChinweokeOhttps://wiki.biocomputeobject.org/index.php?title=Quick_Start_Guide&diff=447&oldid=prevChinweokeO at 18:05, 25 September 20232023-09-25T18:05:04Z<p></p>
<table style="background-color: #fff; color: #202122;" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 18:05, 25 September 2023</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1">Line 1:</td>
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<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of viewing: the Tree view, Raw view and Collapsible view**. <del style="font-weight: bold; text-decoration: none;">{{Drop down list|Name=Views|Value1=Tree View|Value2=Raw View|Value3=Collapsible View}} </del></div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>BioCompute is a powerful tool used for workflow documentation, most commonly for computational analyses and life sciences. It improves transparency and reproducibility in bioinformatics research. A BioCompute Object (BCO) is a representation, in JSON, which can be visualized in any number of ways. This portal has three ways of viewing: the Tree view, Raw view and Collapsible view**. </div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The portal website at https://biocomputeobject.org/ has a plethora of documentation and resources including the [https://wiki.biocomputeobject.org/index.php?title=Main_Page BioCompute Wiki]. The purpose of this quick start guide is to give you a concise starting point.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The portal website at https://biocomputeobject.org/ has a plethora of documentation and resources including the [https://wiki.biocomputeobject.org/index.php?title=Main_Page BioCompute Wiki]. The purpose of this quick start guide is to give you a concise starting point.</div></td></tr>
</table>ChinweokeO