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.github/workflows
.github/workflows
 
 
__pycache__
__pycache__
 
 
adding_from_Ncbi_sources
adding_from_Ncbi_sources
 
 
amr2_visualization
amr2_visualization
 
 
conversion_vmr_ncbi
conversion_vmr_ncbi
 
 
db/schema
db/schema
 
 
dump_backup
dump_backup
 
 
node-psql
node-psql
 
 
plugins
plugins
 
 
schema
schema
 
 
script_cathy_to_template
script_cathy_to_template
 
 
tests
tests
 
 
.gitignore
.gitignore
 
 
.~lock.GRDI_Harmonization-Template_v13.3.3.xlsm#
.~lock.GRDI_Harmonization-Template_v13.3.3.xlsm#
 
 
.~lock.GRDI_Harmonization-Template_v13.4.4.xlsm#
.~lock.GRDI_Harmonization-Template_v13.4.4.xlsm#
 
 
.~lock.GRDI_Master-Reference-Guide_v8.9.8.xlsx#
.~lock.GRDI_Master-Reference-Guide_v8.9.8.xlsx#
 
 
.~lock.Harmonized_Metadata_Golden-GRDI-AMR2-WP4.5_2024-12-06.xlsx#
.~lock.Harmonized_Metadata_Golden-GRDI-AMR2-WP4.5_2024-12-06.xlsx#
 
 
.~lock.P4.2_GRDI_Harmonization-Template_v9.0.0_v30Nov2024.xlsx#
.~lock.P4.2_GRDI_Harmonization-Template_v9.0.0_v30Nov2024.xlsx#
 
 
.~lock.Sample_Metada_Frozem_Stonefruit_2024_WP4.2_EG.xlsx#
.~lock.Sample_Metada_Frozem_Stonefruit_2024_WP4.2_EG.xlsx#
 
 
.~lock.WP4.2_GRDI_Harmonization-Template_v9.0.0_after_curation_v2.xlsx#
.~lock.WP4.2_GRDI_Harmonization-Template_v9.0.0_after_curation_v2.xlsx#
 
 
.~lock.WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024.xlsm#
.~lock.WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024.xlsm#
 
 
.~lock.WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024_updated_curated.xlsx#
.~lock.WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024_updated_curated.xlsx#
 
 
Baseline_Survey_Harmonized_Version_2022-04-22.xlsx
Baseline_Survey_Harmonized_Version_2022-04-22.xlsx
 
 
Baseline_Survey_Harmonized_Version_2022-04-22_Samples_corrected.xlsx
Baseline_Survey_Harmonized_Version_2022-04-22_Samples_corrected.xlsx
 
 
EColi_MBS_part1_Jan62025.sql.gz
EColi_MBS_part1_Jan62025.sql.gz
 
 
EColi_MBS_part2_Jan62025.sql.gz
EColi_MBS_part2_Jan62025.sql.gz
 
 
EColi_MBS_part3_Jan62025.sql.gz
EColi_MBS_part3_Jan62025.sql.gz
 
 
Ecoli_MBS_gene_profile_data.sql.gz
Ecoli_MBS_gene_profile_data.sql.gz
 
 
GRDI_4.2SwineDPL-JSB_v2_EG_TamberLab_NSJ.xlsx
GRDI_4.2SwineDPL-JSB_v2_EG_TamberLab_NSJ.xlsx
 
 
GRDI_Enterococcus_Chongwu_DiarraLab_NSJ.xlsx
GRDI_Enterococcus_Chongwu_DiarraLab_NSJ.xlsx
 
 
GRDI_Harmonization-Template_v11.1.1.xlsm
GRDI_Harmonization-Template_v11.1.1.xlsm
 
 
GRDI_Harmonization-Template_v13.3.3.xlsm
GRDI_Harmonization-Template_v13.3.3.xlsm
 
 
GRDI_Harmonization-Template_v13.4.4.xlsm
GRDI_Harmonization-Template_v13.4.4.xlsm
 
 
GRDI_Harmonization-Template_v14.5.4.xlsm
GRDI_Harmonization-Template_v14.5.4.xlsm
 
 
GRDI_Harmonization-Template_v5.3.2_AC_NSJ.xlsx
GRDI_Harmonization-Template_v5.3.2_AC_NSJ.xlsx
 
 
GRDI_Harmonization-Template_v5.3.2_AL_DPL_NSJ.xlsx
GRDI_Harmonization-Template_v5.3.2_AL_DPL_NSJ.xlsx
 
 
GRDI_Harmonization-Template_v5.3.2_WP4.5 GDS_NSJ.xlsx
GRDI_Harmonization-Template_v5.3.2_WP4.5 GDS_NSJ.xlsx
 
 
GRDI_Harmonization-Template_v5.3.2_WP4.5_GDS_NSJ.xlsx
GRDI_Harmonization-Template_v5.3.2_WP4.5_GDS_NSJ.xlsx
 
 
GRDI_Harmonization-Template_v5.3.2_rw_NSJ.xlsx
GRDI_Harmonization-Template_v5.3.2_rw_NSJ.xlsx
 
 
GRDI_Harmonization-Template_v6.3.2 (Hongsheng Huang)_NSJ.xlsx
GRDI_Harmonization-Template_v6.3.2 (Hongsheng Huang)_NSJ.xlsx
 
 
GRDI_Harmonization-Template_v6.3.2.xlsm
GRDI_Harmonization-Template_v6.3.2.xlsm
 
 
GRDI_Harmonization-Template_v6.3.2_Hongsheng_Huang_NSJ.xlsx
GRDI_Harmonization-Template_v6.3.2_Hongsheng_Huang_NSJ.xlsx
 
 
GRDI_Harmonization-Template_v7.6.4.xlsm
GRDI_Harmonization-Template_v7.6.4.xlsm
 
 
GRDI_Harmonization-Template_v7.6.4_gw.xlsm
GRDI_Harmonization-Template_v7.6.4_gw.xlsm
 
 
GRDI_Harmonization-Template_v7.7.5.xlsm
GRDI_Harmonization-Template_v7.7.5.xlsm
 
 
GRDI_Harmonization-Template_v7.7.5_Test.xlsm
GRDI_Harmonization-Template_v7.7.5_Test.xlsm
 
 
GRDI_Harmonization-Template_v7.7.5_gw.xlsm
GRDI_Harmonization-Template_v7.7.5_gw.xlsm
 
 
GRDI_Harmonization-Template_v8.8.7.xlsm
GRDI_Harmonization-Template_v8.8.7.xlsm
 
 
GRDI_Harmonization-Template_v8.9.8.xlsm
GRDI_Harmonization-Template_v8.9.8.xlsm
 
 
GRDI_Harmonization-Template_v8.9.9.xlsm
GRDI_Harmonization-Template_v8.9.9.xlsm
 
 
GRDI_Harmonization-Template_v8.9.9_2023_WGS_WP3.1.xlsm
GRDI_Harmonization-Template_v8.9.9_2023_WGS_WP3.1.xlsm
 
 
GRDI_Harmonization_Template2.0_2021-E_coli_Xianhua-Moussa_Diarra_lab_curatedNSJ.xlsx
GRDI_Harmonization_Template2.0_2021-E_coli_Xianhua-Moussa_Diarra_lab_curatedNSJ.xlsx
 
 
GRDI_Master-Reference-Guide_v11.1.1.xlsx
GRDI_Master-Reference-Guide_v11.1.1.xlsx
 
 
GRDI_Master-Reference-Guide_v13.3.3.xlsx
GRDI_Master-Reference-Guide_v13.3.3.xlsx
 
 
GRDI_Master-Reference-Guide_v13.4.4.xlsx
GRDI_Master-Reference-Guide_v13.4.4.xlsx
 
 
GRDI_Master-Reference-Guide_v14.5.4.xlsx
GRDI_Master-Reference-Guide_v14.5.4.xlsx
 
 
GRDI_Master-Reference-Guide_v8.9.8.xlsx
GRDI_Master-Reference-Guide_v8.9.8.xlsx
 
 
GRDI_Master-Reference-Guide_v8.9.8_old.xlsx
GRDI_Master-Reference-Guide_v8.9.8_old.xlsx
 
 
GRDI_Master-Reference-Guide_v8.9.9.xlsx
GRDI_Master-Reference-Guide_v8.9.9.xlsx
 
 
GRDI_Salmonella_JoshTang_DiarraLab_NSJ.xlsx
GRDI_Salmonella_JoshTang_DiarraLab_NSJ.xlsx
 
 
Harmonized_Metadata_Golden-GRDI-AMR2-WP4.5_2024-12-06.xlsx
Harmonized_Metadata_Golden-GRDI-AMR2-WP4.5_2024-12-06.xlsx
 
 
P4.2_GRDI_Harmonization-Template_v9.0.0_v30Nov2024.xlsx
P4.2_GRDI_Harmonization-Template_v9.0.0_v30Nov2024.xlsx
 
 
SNC_2000_Metadata171023_ANDREWSCOTT.xlsx
SNC_2000_Metadata171023_ANDREWSCOTT.xlsx
 
 
Sample_Metada_Frozem_Stonefruit_2024_WP4.2_EG.xlsx
Sample_Metada_Frozem_Stonefruit_2024_WP4.2_EG.xlsx
 
 
StoneFruitNewInsertsNov192024.sql
StoneFruitNewInsertsNov192024.sql
 
 
WP4.2-v9.0.0_Stone_Fruit.sql
WP4.2-v9.0.0_Stone_Fruit.sql
 
 
WP4.2_GRDI_Harmonization-Template_v9.0.0.xlsm
WP4.2_GRDI_Harmonization-Template_v9.0.0.xlsm
 
 
WP4.2_GRDI_Harmonization-Template_v9.0.0_GW.csv
WP4.2_GRDI_Harmonization-Template_v9.0.0_GW.csv
 
 
WP4.2_GRDI_Harmonization-Template_v9.0.0_after_curation.csv
WP4.2_GRDI_Harmonization-Template_v9.0.0_after_curation.csv
 
 
WP4.2_GRDI_Harmonization-Template_v9.0.0_after_curation.xlsx
WP4.2_GRDI_Harmonization-Template_v9.0.0_after_curation.xlsx
 
 
WP4.2_GRDI_Harmonization-Template_v9.0.0_after_curation_v2.xlsx
WP4.2_GRDI_Harmonization-Template_v9.0.0_after_curation_v2.xlsx
 
 
WP4.2_GRDI_Harmonization-Template_v9.0.0_v11Nov2024.xlsm
WP4.2_GRDI_Harmonization-Template_v9.0.0_v11Nov2024.xlsm
 
 
WP4.2_GRDI_Harmonization-Template_v9.0.0_v11Nov2024.xlsx
WP4.2_GRDI_Harmonization-Template_v9.0.0_v11Nov2024.xlsx
 
 
WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024.xlsm
WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024.xlsm
 
 
WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024_updated.csv
WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024_updated.csv
 
 
WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024_updated.xlsx
WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024_updated.xlsx
 
 
WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024_updated_curated.xlsx
WP4.2_GRDI_Harmonization-Template_v9.0.0_v31Oct2024_updated_curated.xlsx
 
 
WP4.2_GRDI_StoneFruitSamples_Insertion.sql
WP4.2_GRDI_StoneFruitSamples_Insertion.sql
 
 
WP4.2_GRDI_Stone_Fruit_SequencesP1v12Dez2024.sql
WP4.2_GRDI_Stone_Fruit_SequencesP1v12Dez2024.sql
 
 
WP4.2_GRDI_Stone_Fruit_SequencesP1v13Dez2024.sql
WP4.2_GRDI_Stone_Fruit_SequencesP1v13Dez2024.sql
 
 
WP4.2_GRDI_Stone_Fruit_SequencesP2v12Dez2024.sql
WP4.2_GRDI_Stone_Fruit_SequencesP2v12Dez2024.sql
 
 
WP4.2_GRDI_Stone_Fruit_SequencesP2v13Dez2024.sql
WP4.2_GRDI_Stone_Fruit_SequencesP2v13Dez2024.sql
 
 
WP4.2_GRDI_Stone_Fruitv12Dez2024.sql
WP4.2_GRDI_Stone_Fruitv12Dez2024.sql
 
 
added_sample_ids.txt
added_sample_ids.txt
 
 
amr_sheet_output.xls
amr_sheet_output.xls
 
 
amrita13ecoli.sql.gz
amrita13ecoli.sql.gz
 
 
bioinfo_Results_131_stone_fruit_irida_sequences10Dez2024.sql
bioinfo_Results_131_stone_fruit_irida_sequences10Dez2024.sql
 
 
card.json
card.json
 
 
cathy_par1.csv
cathy_par1.csv
 
 
create_dict_of_samples.py
create_dict_of_samples.py
 
 
create_dict_of_samples_one.py
create_dict_of_samples_one.py
 
 
create_ontology_dict.py
create_ontology_dict.py
 
 
dominic_ecoliAug409isolates.sql.gz
dominic_ecoliAug409isolates.sql.gz
 
 
enteric_template_version.xlsx
enteric_template_version.xlsx
 
 
feed_vmr_table.py
feed_vmr_table.py
 
 
fill_ontology_fields.py
fill_ontology_fields.py
 
 
filled_Antibiogram.1.0.xlsx
filled_Antibiogram.1.0.xlsx
 
 
filled_SRA_metadata_acc.xlsx
filled_SRA_metadata_acc.xlsx
 
 
foodon.owl
foodon.owl
 
 
found_amrita.json
found_amrita.json
 
 

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