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fix: Readme mimic-iv postgres build and concepts links #1685

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132 changes: 72 additions & 60 deletions mimic-iv/concepts/README.md
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# MIMIC-IV Concepts

This folder contains scripts to generate useful abstractions of raw MIMIC-IV data ("concepts").
The scripts are written using the **BigQuery Standard SQL Dialect**. Concepts are categorized into folders if possible, otherwise they remain in the top-level directory. The [postgres](/mimic-iv/concepts_postgres) subfolder contains automatically generated PostgreSQL versions of these scripts; [see below for how these were generated](#postgresql-concepts). Concepts are categorized into folders if possible, otherwise they remain in the top-level directory.

The concepts are organized into individual SQL scripts, with each script generating a table. The BigQuery `mimiciv_derived` dataset under `physionet-data` contains the concepts pregenerated. Access to this dataset is available to MIMIC-IV approved users: see the [cloud instructions](https://mimic.mit.edu/docs/gettingstarted/cloud/) on how to access MIMIC-IV on BigQuery (which includes the derived concepts).

See the [top-level readme](mimic-iv/README.md) for more information about generating the concepts.

## Concept Index

Concepts in this folder:

```
├── comorbidity
└── charlson.sql
   └── charlson.sql
├── demographics
├── age.sql
├── icustay_detail.sql
├── icustay_hourly.sql
├── icustay_times.sql
└── weight_durations.sql
   ├── age.sql
   ├── icustay_detail.sql
   ├── icustay_hourly.sql
   ├── icustay_times.sql
   └── weight_durations.sql
├── firstday
├── first_day_bg.sql
├── first_day_bg_art.sql
├── first_day_gcs.sql
├── first_day_height.sql
├── first_day_lab.sql
├── first_day_rrt.sql
├── first_day_sofa.sql
├── first_day_urine_output.sql
├── first_day_vitalsign.sql
└── first_day_weight.sql
   ├── first_day_bg.sql
   ├── first_day_bg_art.sql
   ├── first_day_gcs.sql
   ├── first_day_height.sql
   ├── first_day_lab.sql
   ├── first_day_rrt.sql
   ├── first_day_sofa.sql
   ├── first_day_urine_output.sql
   ├── first_day_vitalsign.sql
   └── first_day_weight.sql
├── measurement
├── bg.sql
├── blood_differential.sql
├── cardiac_marker.sql
├── chemistry.sql
├── coagulation.sql
├── complete_blood_count.sql
├── creatinine_baseline.sql
├── enzyme.sql
├── gcs.sql
├── height.sql
├── icp.sql
├── inflammation.sql
├── oxygen_delivery.sql
├── rhythm.sql
├── urine_output.sql
├── urine_output_rate.sql
├── ventilator_setting.sql
└── vitalsign.sql
   ├── bg.sql
   ├── blood_differential.sql
   ├── cardiac_marker.sql
   ├── chemistry.sql
   ├── coagulation.sql
   ├── complete_blood_count.sql
   ├── creatinine_baseline.sql
   ├── enzyme.sql
   ├── gcs.sql
   ├── height.sql
   ├── icp.sql
   ├── inflammation.sql
   ├── oxygen_delivery.sql
   ├── rhythm.sql
   ├── urine_output.sql
   ├── urine_output_rate.sql
   ├── ventilator_setting.sql
   └── vitalsign.sql
├── medication
│ ├── acei.sql
│ ├── antibiotic.sql
│ ├── dobutamine.sql
│ ├── dopamine.sql
│ ├── epinephrine.sql
│ ├── milrinone.sql
│ ├── neuroblock.sql
│ ├── norepinephrine.sql
│ ├── norepinephrine_equivalent_dose.sql
│ ├── nsaid.sql
│ ├── phenylephrine.sql
│ ├── vasoactive_agent.sql
│ └── vasopressin.sql
│   ├── acei.sql
│   ├── antibiotic.sql
│   ├── arb.sql
│   ├── dobutamine.sql
│   ├── dopamine.sql
│   ├── epinephrine.sql
│   ├── milrinone.sql
│   ├── neuroblock.sql
│   ├── norepinephrine.sql
│   ├── norepinephrine_equivalent_dose.sql
│   ├── nsaid.sql
│   ├── phenylephrine.sql
│   ├── vasoactive_agent.sql
│   └── vasopressin.sql
├── organfailure
├── kdigo_creatinine.sql
├── kdigo_stages.sql
├── kdigo_uo.sql
└── meld.sql
   ├── kdigo_creatinine.sql
   ├── kdigo_stages.sql
   ├── kdigo_uo.sql
   └── meld.sql
├── score
├── apsiii.sql
├── lods.sql
├── oasis.sql
├── sapsii.sql
├── sirs.sql
└── sofa.sql
   ├── apsiii.sql
   ├── lods.sql
   ├── oasis.sql
   ├── sapsii.sql
   ├── sirs.sql
   └── sofa.sql
├── sepsis
├── sepsis3.sql
└── suspicion_of_infection.sql
   ├── sepsis3.sql
   └── suspicion_of_infection.sql
└── treatment
├── code_status.sql
├── crrt.sql
├── invasive_line.sql
├── rrt.sql
└── ventilation.sql
└── ventilation.sql
```
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