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We aim to share our outputs with the scientific community and have developed a range of open source tools.

 

                                 

Description

Group

CapSequm.png

CapSequm

Online tool to design oligonucleotides for multiple targets for use in next generation (NG) Capture-C experiments. Reference

Hughes, Taylor

CGAT.jpg

Computational Genomics Analysis Toolkit

Sims
HEMdb.png

HEM Database

The Human Erythroblast Maturation database (HEM) contains differentially regulated and continuously expressed transcripts: a resource for future functional studies of erythropoiesis.

Taylor

MIG

The Multi-Image Genome viewer (MIG) is primarily aimed at high-throughput sequencing experiments where a "signal" is detected at multiple locations across the genome (such as ChIP-Seq and RNA-Seq). MIG allows the user to filter, sort and visualise these regions of interest in their local genome context. Reference

Taylor
miR_CRISPR.png

miR-CRISPR

The miR-CRISPR tool is an integrated algorithm designed to facilitate CRISPR / Cas9 genome engineering of putative microRNA response elements (MREs). Reference

Taylor

Ruffus

A pipelining tool for Python

Sims
SasQ_logo.png

Sasquatch

Predicting the impact of regulatory SNPs on transcription factor binding from cell- and tissue-specific DNase footprints. Reference

Hughes

 

UMI-tools

Deduplication using molecular barcodes

Sims
WMD.png

WMD

Comparison of reference and mutant DNA: identifies restriction enzymes that cut the two sequences in a discriminative manner

Taylor
zegami.png

Zegami

Zegami lets you search, sort, filter and group collections of images in real time and in a single field of view. It allows you to load not only your images, but also the associated metadata and has an array of in-built filters that make it easy to see patterns and identify relationships based on the data contained in each image.

Taylor