ggirelli / gpseq-seq-gg

GPSeq sequencing data analysis pipeline

gpseq-seq-gg [v2.0.2]

A pipeline for Genomic loci Positioning by Sequencing (GPSeq) sequencing data analysis.

More instructions are available in docs. Also, please visit the how to page and the F.A.Q. page for more details and what to do in case of an error.

Pipeline steps

1. Control quality.
2. Filter pattern.
3. Align reads and filter SAM.
4. Group and deduplicate UMIs (Unique Molecular Identifiers).
5. Bin and plot.
6. Advanced analysis.

More general information on each step are available in the wiki.

In development

• Enrichment test in provided data-track.
• Assign global radial position.
• Library complexity

Pipeline setup

More details in the installation page.

gpseq-seq-gg's Issues

Re-implement as snakemake workflow.

Initial Update

Hi 👊

This is my first visit to this fine repo, but it seems you have been working hard to keep all dependencies updated so far.

Once you have closed this issue, I'll create seperate pull requests for every update as soon as I find one.

That's it for now!

Happy merging! 🤖