From 9775adcb7d24b6cc91177a4ac49a5d142792fcc3 Mon Sep 17 00:00:00 2001 From: Henry Webel Date: Tue, 15 Jul 2025 13:18:48 +0200 Subject: [PATCH] :bug: rasmussen.org not continued anymore --- README.md | 4 ++-- project/README.md | 4 ++-- 2 files changed, 4 insertions(+), 4 deletions(-) diff --git a/README.md b/README.md index 461abbfec..8131570be 100644 --- a/README.md +++ b/README.md @@ -123,7 +123,7 @@ see the tutorial: [![open in Colab](https://colab.research.google.com/assets/col The PIMMS comparison workflow is a snakemake workflow that runs the all selected PIMMS models and R-models on a user-provided dataset and compares the results. An example for a publickly available Alzheimer dataset on the -protein groups level is re-built regularly and available at: [rasmussenlab.org/pimms](https://www.rasmussenlab.org/pimms/) +protein groups level is re-built regularly and available at: [rasmussenlab.github.io/pimms](https://rasmussenlab.github.io/pimms/) It is built on top of - the [Snakefile_v2.smk](https://github.com/RasmussenLab/pimms/blob/HEAD/project/workflow/Snakefile_v2.smk) (v2 of imputation workflow), specified in on configuration @@ -157,7 +157,7 @@ snakemake -s workflow/Snakefile_v2.smk --configfile config/alzheimer_study/confi snakemake -s workflow/Snakefile_v2.smk --configfile config/alzheimer_study/config.yaml -p -c2 # two cores/process, execute # after imputation workflow, execute the comparison workflow snakemake -s workflow/Snakefile_ald_comparison.smk --configfile config/alzheimer_study/comparison.yaml -p -c1 -# If you want to build the website locally: https://www.rasmussenlab.org/pimms/ +# If you want to build the website locally: https://rasmussenlab.github.io/pimms/ pip install .[docs] pimms-setup-imputation-comparison -f project/runs/alzheimer_study/ pimms-add-diff-comp -f project/runs/alzheimer_study/ -sf_cp project/runs/alzheimer_study/diff_analysis/AD diff --git a/project/README.md b/project/README.md index 44ca9cac1..a5fccee91 100644 --- a/project/README.md +++ b/project/README.md @@ -2,7 +2,7 @@ The PIMMS comparison workflow is a snakemake workflow that runs the all selected PIMMS models and R-models on a user-provided dataset and compares the results. An example for a [public alzheimer dataset](https://github.com/RasmussenLab/njab/tree/main/docs/tutorial/data) -on the protein groups level is re-built regularly and available at: [rasmussenlab.org/pimms](https://www.rasmussenlab.org/pimms/) +on the protein groups level is re-built regularly and available at: [rasmussenlab.github.io/pimms](https://rasmussenlab.github.io/pimms/) ## Data requirements @@ -137,4 +137,4 @@ jupytext --to ipynb -k - -o - 01_1_train_KNN.py | papermill - runs/rev3/01_1_tra jupytext --to ipynb -k - -o - 01_1_train_KNN_unique_samples.py | papermill - runs/rev3/01_1_train_KNN_unique_samples.ipynb # new comparison (check if the old nb could be used for this purpose) jupytext --to ipynb -k - -o - 01_3_revision3.py | papermill - runs/rev3/01_3_revision3.ipynb -``` \ No newline at end of file +```