Neurospora RIP mutation

# Neurospora RIP mutation

Storage of code and files used in N.crassa RIP analysis

## Genome mutation calling

Processing of fastq files into bams and vcfs. Filtering reliable mutations

## Methylation quantification

Using Bismark to process the raw data and prodived methylation quantification results.

##sly1_mutation

Code and files used in Sly1-1 mutations

## attached files

Some files containing the information used in this analysis

### RLR_refseq_annotation.fas

The sequences of the RLR segments used in the study.

### RLR_refseq_region.bed

The annotation of the RLR_refseq in bed format

### Dup_window_category_w200_v6.0based.bed

Annotating the duplication region with the four criterias in the study. In bed format.