https://wiki.biomarkerkb.org/index.php?action=history&feed=atom&title=Frequently_Asked_Questions
Frequently Asked Questions - Revision history
2026-05-08T13:29:17Z
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https://wiki.biomarkerkb.org/index.php?title=Frequently_Asked_Questions&diff=173&oldid=prev
JeetVora at 17:04, 30 January 2026
2026-01-30T17:04:38Z
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 17:04, 30 January 2026</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>1<del style="font-weight: bold; text-decoration: none;">) How to download all </del>the '<del style="font-weight: bold; text-decoration: none;">current</del>' <del style="font-weight: bold; text-decoration: none;">dataset files using CLI</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><ins style="font-weight: bold; text-decoration: none;">'''</ins>1<ins style="font-weight: bold; text-decoration: none;">. Where can I find more information on </ins>the <ins style="font-weight: bold; text-decoration: none;">project?'</ins>'' <ins style="font-weight: bold; text-decoration: none;">The project webpage can be found [https://biomarkerkb.org/about/ here].</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;"><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" 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><del style="font-weight: bold; text-decoration: none;">> The BiomarkerKB dataset </del>can <del style="font-weight: bold; text-decoration: none;">be downloaded using command - <code>wget -r -l1 -np -nd -R "index.html*" <nowiki></del>https://<del style="font-weight: bold; text-decoration: none;">data</del>.<del style="font-weight: bold; text-decoration: none;">biomarkerkb</del>.<del style="font-weight: bold; text-decoration: none;">org/ln2data/releases/data/current/reviewed/</nowiki></code></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><ins style="font-weight: bold; text-decoration: none;">'''2. Is the project repository publicly available?''' You </ins>can <ins style="font-weight: bold; text-decoration: none;">view all the project repositories [</ins>https://<ins style="font-weight: bold; text-decoration: none;">github</ins>.<ins style="font-weight: bold; text-decoration: none;">com/clinical-biomarkers here]</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;"><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" 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><del style="font-weight: bold; text-decoration: none;">2)</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><ins style="font-weight: bold; text-decoration: none;">'''3. What are the biomarker scores and how are scores assigned for the biomarkers?''' The biomarker-score-calculator and default scoring algorithm can be found [https://github.com/clinical-biomarkers/biomarker-score-calculator here]. The biomarker scores can be seen on the full JSON data model responses from the API.</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> </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;">'''4. Why are some biomarkers assigned a score of 0?''' Biomarkers with a default score of 0 are manually assigned a 0 score and are pending a manual review. The review of the biomarker can include a spot check, full manual quality checking, NLP based methods, and discussions with the submitter/resource. Until the review is complete the biomarker will keep a score of 0 and after the review is complete the biomarker will be scored using the biomarker score calculator tool.</ins></div></td></tr>
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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;">'''5. How to download all the 'current' dataset files using CLI?''' The BiomarkerKB dataset can be downloaded using command - <code>wget -r -l1 -np -nd -R "index.html*" <nowiki>https://data.biomarkerkb.org/ln2data/releases/data/current/reviewed/</nowiki></code></ins></div></td></tr>
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JeetVora
https://wiki.biomarkerkb.org/index.php?title=Frequently_Asked_Questions&diff=160&oldid=prev
JeetVora at 18:27, 13 January 2026
2026-01-13T18:27:54Z
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 18:27, 13 January 2026</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>How to download all the 'current' dataset files using CLI</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><ins style="font-weight: bold; text-decoration: none;">1) </ins>How to download all the 'current' dataset files using CLI</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 BiomarkerKB dataset can be downloaded using command - <code>wget -r -l1 -np -nd -R "index.html*" <nowiki>https://data.biomarkerkb.org/ln2data/releases/data/current/reviewed/</nowiki></code></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 BiomarkerKB dataset can be downloaded using command - <code>wget -r -l1 -np -nd -R "index.html*" <nowiki>https://data.biomarkerkb.org/ln2data/releases/data/current/reviewed/</nowiki></code></div></td></tr>
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JeetVora
https://wiki.biomarkerkb.org/index.php?title=Frequently_Asked_Questions&diff=159&oldid=prev
JeetVora at 18:27, 13 January 2026
2026-01-13T18:27:35Z
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 18:27, 13 January 2026</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>How to download all the 'current' dataset files using CLI</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>How to download all the 'current' dataset files using CLI</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" 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>> The BiomarkerKB dataset can be downloaded using command - <code>wget -r -l1 -np -R "index.html*" <nowiki>https://data.biomarkerkb.org/ln2data/releases/data/current/reviewed/</nowiki></code></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>> The BiomarkerKB dataset can be downloaded using command - <code>wget -r -l1 -np <ins style="font-weight: bold; text-decoration: none;">-nd </ins>-R "index.html*" <nowiki>https://data.biomarkerkb.org/ln2data/releases/data/current/reviewed/</nowiki></code></div></td></tr>
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JeetVora
https://wiki.biomarkerkb.org/index.php?title=Frequently_Asked_Questions&diff=152&oldid=prev
JeetVora at 18:15, 16 December 2025
2025-12-16T18:15:15Z
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 18:15, 16 December 2025</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><del style="font-weight: bold; text-decoration: none;">FAQ</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><ins style="font-weight: bold; text-decoration: none;">How to download all the 'current' dataset files using CLI</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> </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;">> The BiomarkerKB dataset can be downloaded using command - <code>wget -r -l1 -np -R "index.html*" <nowiki>https://data.biomarkerkb.org/ln2data/releases/data/current/reviewed/</nowiki></code></ins></div></td></tr>
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JeetVora
https://wiki.biomarkerkb.org/index.php?title=Frequently_Asked_Questions&diff=24&oldid=prev
Swathi.muralisrinivasan at 18:47, 20 December 2024
2024-12-20T18:47:24Z
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 18:47, 20 December 2024</td>
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Swathi.muralisrinivasan
https://wiki.biomarkerkb.org/index.php?title=Frequently_Asked_Questions&diff=22&oldid=prev
Swathi.muralisrinivasan: Created page with "About Web Services API"
2024-12-20T18:46:39Z
<p>Created page with "About Web Services API"</p>
<p><b>New page</b></p><div>About Web Services API</div>
Swathi.muralisrinivasan