... | ... | @@ -34,15 +34,15 @@ BiocManager::install(c("ChIPseeker", "GenomicRanges", "rtracklayer", "TxDb.Hsapi |
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* [Workflow management](https://ascgitlab.helmholtz-muenchen.de/chromatin_summer_school_2022/wiki/-/wikis/Workflow-management)
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* 13:00 Lunch
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* 14:00 External seminar
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* 15:00 Data processing I
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* 15:00 [Data processing I](https://ascgitlab.helmholtz-muenchen.de/chromatin_summer_school_2022/workshops/data_processing_1)
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* Quality Control ([FastQC](https://www.bioinformatics.babraham.ac.uk/projects/fastqc/), [multiQC](https://multiqc.info))
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* Alignment ([Bowtie2](http://bowtie-bio.sourceforge.net/bowtie2/index.shtml))
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* File formats ([fasta](https://en.wikipedia.org/wiki/FASTA_format), [fastq](https://en.wikipedia.org/wiki/FASTQ_format), [bam](https://en.wikipedia.org/wiki/SAM_(file_format)))
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### Thursday
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* 09:00 Data processing II
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* 09:00 [Data processing II](https://ascgitlab.helmholtz-muenchen.de/chromatin_summer_school_2022/workshops/data_processing_2)
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* Genome coverage ([Deeptools](https://deeptools.readthedocs.io/en/develop/))
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* Peak finding ([MACS2](https://github.com/macs3-project/MACS))
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* Genome browser tracks ([Deeptools](https://deeptools.readthedocs.io/en/develop/))
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* File formats ([bed](https://en.wikipedia.org/wiki/BED_(file_format)), [bedgraph](https://genome.ucsc.edu/goldenpath/help/bedgraph.html))
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* Interpreting workflow results
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* 13:00 Lunch
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