pairtools: A simple and fast tool suite for processing sequencing data from a Hi-C experiment now in Galaxy!

Now use pairtools in the European Galaxy Server to process your Hi-C experiment data 🧑‍💻"

What is pairtools? What does it do?

pairtools is a tool suite that offers a streamlined and rapid solution tailored for processing sequencing data derived from Hi-C experiments. It executes diverse operations on Hi-C pairs and holds a central role within the standard Hi-C data processing pipeline.

pairtools aim to be an all-in-one tool for processing Hi-C pairs, and can perform following operations:

1. Find ligation pairs in alignments and create pairs using pairtools parse
2. Sort pairs files for downstream analyses using pairtools sort
3. Split a pairsam file into pairs and SAM/BAM using pairtools split
4. Find and remove PCR/optical duplicates usinf pairtools dedup
5. Generate extensive statistics of Hi-C datasets using pairtools stats

How to use the tool

Please follow these steps for application:

a) Open the desired tool from the pairtools suite on Galaxy Europe.

b) Supply the input data files as per requirement.

c) Run the tool to process your input data.

Keen to explore further? Check out pairtools on our Galaxy Server and enhance your analysis!

More details

To learn more about the tool, please visit full documentation that can be found in the here.