From a28843ed68e6ce35eefa0a584baf52416da8d681 Mon Sep 17 00:00:00 2001 From: ani Date: Sun, 19 Jul 2026 14:50:03 +0000 Subject: [PATCH] docs(mimic-iv-cxr): fix broken module and /txt markdown links Root CXR README used mimic.mit.edu//iv/.../about (404). Chexpert/negbio READMEs linked /txt/ at the repo root. Point both at the real paths. --- mimic-iv-cxr/README.md | 2 +- mimic-iv-cxr/txt/README.md | 4 ++-- mimic-iv-cxr/txt/chexpert/README.md | 2 +- mimic-iv-cxr/txt/negbio/README.md | 2 +- 4 files changed, 5 insertions(+), 5 deletions(-) diff --git a/mimic-iv-cxr/README.md b/mimic-iv-cxr/README.md index a632e3f65..f30690ef4 100644 --- a/mimic-iv-cxr/README.md +++ b/mimic-iv-cxr/README.md @@ -1,5 +1,5 @@ # MIMIC-CXR -MIMIC-CXR is a publicly available database of chest x-rays with free-text radiology reports. You can read more about the dataset on [the PhysioNet project page](https://mimic.mit.edu//iv/modules/cxr/about/). +MIMIC-CXR is a publicly available database of chest x-rays with free-text radiology reports. You can read more about the dataset on [the PhysioNet project page](https://mimic.mit.edu/docs/iv/modules/cxr/). This repository is intended to support use of the data by providing code, documentation, and a central location for discussion (in the form of GitHub issues). Feedback and contributions are always welcome! \ No newline at end of file diff --git a/mimic-iv-cxr/txt/README.md b/mimic-iv-cxr/txt/README.md index c9f50cbb3..8e5ac7cc8 100644 --- a/mimic-iv-cxr/txt/README.md +++ b/mimic-iv-cxr/txt/README.md @@ -20,8 +20,8 @@ The script can be run (from this folder) as follows: ## CheXpert -Instructions for generating CheXpert annotations from the reports are available [in the chexpert subfolder](/txt/chexpert). +Instructions for generating CheXpert annotations from the reports are available [in the chexpert subfolder](/mimic-iv-cxr/txt/chexpert). ## NegBio -Instructions for generating CheXpert annotations from the reports are available [in the negbio subfolder](/txt/negbio). \ No newline at end of file +Instructions for generating CheXpert annotations from the reports are available [in the negbio subfolder](/mimic-iv-cxr/txt/negbio). \ No newline at end of file diff --git a/mimic-iv-cxr/txt/chexpert/README.md b/mimic-iv-cxr/txt/chexpert/README.md index eadefd425..fcc6ff80e 100644 --- a/mimic-iv-cxr/txt/chexpert/README.md +++ b/mimic-iv-cxr/txt/chexpert/README.md @@ -4,7 +4,7 @@ This folder provides code and instructions for running the CheXpert NLP tool on ## Requirements -1. Sectioned report CSVs using the create_section_files.py script. See the [txt folder](/txt/) for details. +1. Sectioned report CSVs using the create_section_files.py script. See the [txt folder](/mimic-iv-cxr/txt/) for details. * From this, note the path containing the CSVs, e.g. `/data/mimic-cxr/sections`. This folder should have 22 files, with filenames `mimic_cxr_000.csv`, `mimic_cxr_001.csv`, ... 2. We use the `conda` manager to create a virtual environment to run the code in. To use `conda`, you will need to install [Miniconda](https://docs.conda.io/en/latest/miniconda.html) or [Anaconda](https://www.anaconda.com/) (Miniconda is a light-weight alternative of Anaconda). diff --git a/mimic-iv-cxr/txt/negbio/README.md b/mimic-iv-cxr/txt/negbio/README.md index 0f9e500a9..74e624291 100644 --- a/mimic-iv-cxr/txt/negbio/README.md +++ b/mimic-iv-cxr/txt/negbio/README.md @@ -4,7 +4,7 @@ This folder provides code and instructions for running the NegBio NLP tool on MI ## Requirements -1. Sectioned report CSVs using the create_section_files.py script. See the [txt folder](/txt/) for details. +1. Sectioned report CSVs using the create_section_files.py script. See the [txt folder](/mimic-iv-cxr/txt/) for details. * From this, note the path containing the CSVs, e.g. `/data/mimic-cxr/sections`. This folder should have 22 files, with filenames `mimic_cxr_000.csv`, `mimic_cxr_001.csv`, ... 2. We use the `conda` manager to create a virtual environment to run the code in. To use `conda`, you will need to install [Miniconda](https://docs.conda.io/en/latest/miniconda.html) or [Anaconda](https://www.anaconda.com/) (Miniconda is a light-weight alternative of Anaconda).