Glass: Door

Software for motif discovery and next generation sequencing analysis

HOMER (Hypergeometric Optimization of Motif EnRichment) is a suite of tools for Motif Discovery and ChIP-Seq analysis. It is a collection of command line programs for unix-style operating systems written in mostly perl and c++. Homer was primarily written as a de novo motif discovery algorithm that is well suited for finding 8-12 bp motifs in large scale genomics data.

Hardware Requirements (recommended): 2+ Gb memory (4-8+ Gb), 10+ Gb Hard Drive space (50+ Gb)
Software Requirements: Unix compatible OS (or cygwin), perl, gcc, make, wget (optional for full functionality: R, DESeq2, blat, bedGraphToBigWig, liftOver)
License: GPLv3

HOMER works on pretty much any Linux/UNIX systems, including MacOS (if Xcode compilers are installed) and on Windows using either cygwin or a Linux subsystem.

If you are looking specifically for HOMER2, you are in the right place! HOMER2 is integrated into HOMER.

Full Program Download

Walking toward a glass door feels different than approaching a heavy oak panel. One invites a gaze; the other demands a knock. Throughout history, the evolution of the glass door has mirrored our shifting desire for openness—moving from the secretive corridors of Victorian manors to the ultra-transparent "fishbowl" offices of Silicon Valley. The Office "Fishbowl" Effect

Constant motion in the peripheral vision can drop productivity by 15%.

In home design, glass doors serve as the bridge between the curated interior and the wild exterior.

When people feel watched, they tend to act more formally and share less.

Program Components and Older Versions

Glass: Door

Constant motion in the peripheral vision can drop productivity by 15%. Glass door

In home design, glass doors serve as the bridge between the curated interior and the wild exterior. Walking toward a glass door feels different than

When people feel watched, they tend to act more formally and share less. Glass door

Update Information

Change Log - Short description of recent changes

update.txt - Current HOMER configuration list (Currently support human hg17/hg18/hg19, mouse mm8/mm9, rat rn4, X. tropicalis xenTro2, drosophila dm3, and C. elegans ce6, Zebrafish danRer7, yeast sacCer2, Arabidopsis tair10, Rice msu6, Pombe ASM294v1)

Can't figure something out? Questions, comments, concerns, or other feedback:
cbenner@ucsd.edu