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Update home authored by tamas.schauer's avatar tamas.schauer
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...@@ -32,6 +32,8 @@ BiocManager::install(c("ChIPseeker", "GenomicRanges", "rtracklayer", "TxDb.Hsapi ...@@ -32,6 +32,8 @@ BiocManager::install(c("ChIPseeker", "GenomicRanges", "rtracklayer", "TxDb.Hsapi
* [Reproducible Research](https://ascgitlab.helmholtz-muenchen.de/chromatin_summer_school_2022/presentations/reproducibility_intro/-/blob/main/Reproducibility_Intro.pdf) * [Reproducible Research](https://ascgitlab.helmholtz-muenchen.de/chromatin_summer_school_2022/presentations/reproducibility_intro/-/blob/main/Reproducibility_Intro.pdf)
* Introduction to SLURM and HPC * Introduction to SLURM and HPC
* 11:00 [Snakemake Workflow](https://ascgitlab.helmholtz-muenchen.de/chromatin_summer_school_2022/workflows/snakemake-ngs-processing) * 11:00 [Snakemake Workflow](https://ascgitlab.helmholtz-muenchen.de/chromatin_summer_school_2022/workflows/snakemake-ngs-processing)
* Workflow step-by-step
* Snakemake basic exercises
* 13:00 Lunch * 13:00 Lunch
* 14:00 External seminar * 14:00 External seminar
* 15:00 [Data processing I](https://ascgitlab.helmholtz-muenchen.de/chromatin_summer_school_2022/workshops/data_processing_1) * 15:00 [Data processing I](https://ascgitlab.helmholtz-muenchen.de/chromatin_summer_school_2022/workshops/data_processing_1)
...@@ -45,7 +47,7 @@ BiocManager::install(c("ChIPseeker", "GenomicRanges", "rtracklayer", "TxDb.Hsapi ...@@ -45,7 +47,7 @@ BiocManager::install(c("ChIPseeker", "GenomicRanges", "rtracklayer", "TxDb.Hsapi
* Peak finding ([MACS2](https://github.com/macs3-project/MACS)) * Peak finding ([MACS2](https://github.com/macs3-project/MACS))
* File formats ([bed](https://en.wikipedia.org/wiki/BED_(file_format)), [bedgraph](https://genome.ucsc.edu/goldenpath/help/bedgraph.html)) * File formats ([bed](https://en.wikipedia.org/wiki/BED_(file_format)), [bedgraph](https://genome.ucsc.edu/goldenpath/help/bedgraph.html))
* 11:00 Basic [Dataviz with Deeptools](https://ascgitlab.helmholtz-muenchen.de/chromatin_summer_school_2022/workshops/dataviz_deeptools) * 11:00 Basic [Dataviz with Deeptools](https://ascgitlab.helmholtz-muenchen.de/chromatin_summer_school_2022/workshops/dataviz_deeptools)
* 12:00 Snakemake Exercise * 12:00 Snakemake final exercise
* 13:00 Lunch * 13:00 Lunch
* 14:00 External seminar * 14:00 External seminar
* 15:00 Downstream analysis * 15:00 Downstream analysis
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