@@ -27,4 +27,19 @@ This practical aims to familiarize you with the Galaxy user interface. It will t
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In this section we will look at practical aspects of manipulation of next-generation sequencing data. We will start with Fastq format produced by most sequencing machines and will finish with SAM/BAM format representing mapped reads.
In this section we will look at practical aspects of manipulation of next-generation sequencing data. We will start with Fastq format produced by most sequencing machines and will finish with SAM/BAM format representing mapped reads.
**Tutorial**:[Manipulating NGS data with Galaxy](https://galaxyproject.org/tutorials/ngs/).
**Tutorial**:[Manipulating NGS data with Galaxy](https://galaxyproject.org/tutorials/ngs/).
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## What is ChIP-Seq?
**Slides**: [ChIP-seq data analysis](https://galaxyproject.github.io/training-material/topics/epigenetics/tutorials/formation_of_super-structures_on_xi/slides.html#1)
## Process and analyze ChIP-Seq data
In the upcoming tutorial, we will use wild type data from Wang et al. 2018 and analyze the ChIP-seq data step by step:
* CTCF with 2 replicates: wt_CTCF_rep1 and wt_CTCF_rep2
* H3K4me3 with 2 replicates: wt_H3K4me3_rep1 and wt_H3K4me3_rep2
* H3K27me3 with 2 replicates: wt_H3K27me3_rep1 and wt_H3K27me3_rep2
* ‘input’ with 2 replicates: wt_input_rep1 and wt_input_rep2
**Tutorial**: [Formation of the Super-Structures on the Inactive X](https://galaxyproject.github.io/training-material/topics/epigenetics/tutorials/formation_of_super-structures_on_xi/tutorial.html).