@prefix nmdc: <https://w3id.org/nmdc/> .
nmdc:nmdc a owl:Ontology ;
rdfs:label "NMDC" ;
dcterms:license "https://creativecommons.org/publicdomain/zero/1.0/" ;
Mark Andrew Miller turbomam
turbomam
/ relevant_gdrive_documents.tsv
Created
November 20, 2025 15:36
Curated Google Drive Documents for METPO/KG-Microbe/CMM Work
We can make this file beautiful and searchable if this error is corrected: It looks like row 8 should actually have 4 columns, instead of 2 in line 7.
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| Title URL Type Notes | |
| 2022-10-24: BER update https://docs.google.com/presentation/d/1Q6FV8VGCxTsVkGeUfaR-1c8CoWIRUNxpizAq2QdIbkU Google Slides BER project update (Oct 2022) | |
| 2025_DOE_BER_CM_REE https://drive.google.com/drive/folders/1WAmbFZuMw8-Oq6GxTe63XxJP1wmihmrM Folder 2025 DOE BER Critical Minerals & REE project folder | |
| Agenda Kickoff Meeting for FY25 CMM Projects.pdf https://drive.google.com/file/d/1K_HHrQC2DlsYEb2MTh67carptXVGE3ZL PDF FY25 CMM kickoff meeting agenda | |
| BER CMM 2025 AI https://docs.google.com/document/d/1Zd_zSUCzY9nBbgR0Q-co8otFSid0RB57Glnk8sHUwSc Google Doc BER Critical Minerals & Materials AI project document (2025) | |
| BER CMM AI Project Map https://docs.google.com/spreadsheets/d/1y36vxDcfs6ZxqelfpxJMC5Nw91Q5aqGVZedZ3kpGEnA Google Sheet Project mapping/organization for CMM AI work | |
| BER CMM AI Task 1.1 https://docs.google.com/presentation/d/1nwbHXUDZXv1YxPM2a5SJomLmIv-huEHcFKNzZr8o9mg Google Slides Task 1.1 presentation for BER CMM AI | |
| BER CMM Data for AI - for editing https://docs.google.com/spr |
turbomam
/ nmdc-graphdb-build-2024-04-11.md
Last active
April 25, 2024 18:47
turbomam
/ person_and_qualified_identifier_sets_data.yaml
Last active
February 7, 2024 19:58
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| person_set: | |
| - id: example:ck1 | |
| name: Clark Kent | |
| primary_email: [email protected] | |
| age_in_years: 33 | |
| - id: example:superman1 | |
| name: Superman | |
| primary_email: [email protected] | |
| age_in_years: 33 | |
| - id: example:kalel1 |
turbomam
/ has_qualified_identifers_schema.yaml
Last active
February 7, 2024 19:29
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| name: has-qualified-identifers-schema | |
| see_also: | |
| - https://turbomam.github.io/reactions-for-owl | |
| - https://gist.githubusercontent.com/turbomam/56956b2d7761fc669d2e8ab15e5cb1f0/raw/64f40292b81d3e04f873e076ae66756059651654/has_qualified_identifers_schema.yaml | |
| id: http://example.com/has_qualified_identifers_schema | |
| prefixes: | |
| has_qualified_identifers: http://example.com/has_qualified_identifers_schema/ | |
| linkml: https://w3id.org/linkml/ | |
| example: https://example.org/ |
turbomam
/ graph_db_use_common.R
Created
July 7, 2020 19:02
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| library(devtools) | |
| # requires a properly formatted "graph_db_common.yaml" in the home directory of the user who started this script | |
| # see https://gist.github.com/turbomam/b11adbbff02d5abddaf76d30ba3249a8 for template | |
| devtools::source_gist(id = "https://gist.github.com/turbomam/f620e9e9f042b643e47de730328e3e83", | |
| sha1 = "85b1ac5c19571687aed9268e001051547c7998ed", | |
| filename = "graph_db_common.R") |
turbomam
/ graph_db_common_template.yaml
Created
July 7, 2020 16:15
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| default: | |
| # enter local values and save in user's home directory as graph_db_common.yaml | |
| # GraphDB standard port = 7200 | |
| # should probably split into server address and port variables | |
| my.graphdb.base: 'http://graphdbserver:graphdbport' | |
| my.selected.repo: '' | |
| my.graphdb.username: '' | |
| my.graphdb.pw: '' | |
| # Solr standard port = 8983 | |
| med.map.kb.solr.host: '' |
turbomam
/ graph_db_common.R
Last active
July 7, 2020 16:12
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| options(java.parameters = "-Xmx6g") | |
| # see also https://jangorecki.gitlab.io/data.cube/library/data.table/html/dcast.data.table.html | |
| library(config) | |
| # library(dplyr) | |
| # library(ggplot2) | |
| library(httr) | |
| # library(igraph) | |
| library(jsonlite) | |
| # library(randomForest) |
turbomam
/ turbo_R_setup.template.yaml
Last active
June 16, 2020 17:50
global configuration for TURBO R scripts
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| default: | |
| # replace <SECRET>s with settings appropriate for your environment | |
| # and save as ~/turbo_R_setup.yaml | |
| # | |
| # still need to make file paths relative | |
| # | |
| pds.host: <SECRET> | |
| pds.port: <SECRET> | |
| pds.database: <SECRET> | |
| pds.user: <SECRET> |
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| options(java.parameters = "-Xmx6g") | |
| # see also https://jangorecki.gitlab.io/data.cube/library/data.table/html/dcast.data.table.html | |
| library(config) | |
| library(dplyr) | |
| library(ggplot2) | |
| library(httr) | |
| library(igraph) | |
| library(jsonlite) | |
| library(randomForest) |