deepTools
Deployment:: deepTools Domain:: Tools for the visualization, quality control and normalization of data from high-throughput DNA sequencing experiments. Owners:: Bioinformatics and Deep-Sequencing Units at the Max Planck Institute for Immunobiology and Epigenetics. Audience:: Publicly accessible. User Base:: Unknown Server Topology:: Standalone server Compute:: 16 processors Memory:: 141GB Storage:: Directly attached Disk Size:: 2TB User Management:: Account creation is open

deepTools offers multiple methods for highly-customizable data visualization that immensely aid hypothesis generation and data interpretation. It also offers all the tools needed to create coverage files in standard bedGraph and bigWig file formats allowing various normalization procedures and comparisons between two files (for example, treatment and control).

Domain

Community

Compute Infrastructure

See this NAR supplement.

Hardware
processors 16
RAM 141 GB
storage (directly attached) 2 TB
Galaxy Performance Settings
concurrent users unlimited
CPU cores per job 6
concurrent jobs per user 1
concurrent jobs 2
queueing system Galaxy built-in
Exemplary run time
BAM file 170 M reads
BED file 10000 regions
bamCoverage 10 minutes
computeMatrix 1 minutes