HOMER specifications

Unique identifier:
OMICS_00483
Software type:
Package/Module
Restrictions to use:
None
Computer skills:
Advanced
Maintained:
Yes
Name:
Hypergeometric Optimization of Motif EnRichment
Interface:
Command line interface
Operating system:
Unix/Linux
Stability:
Stable

Subtools

  • findMotifs
  • findMotifsGenome
  • scanMotifGenomeWide
  • compareMotifs

versioning

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No versioning.

HOMER distribution

download

HOMER support

Maintainers

  • Christopher Glass <>
  • Christopher Benner <>

forum

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Credits

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Publications

Institution(s)

Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Department of Medicine, University of California, San Diego, La Jolla, CA, USA; Section of Molecular Biology, University of California, San Diego, La Jolla, CA, USA; Molecular Genetics and Cell Biology, The University of Chicago, Chicago, IL, USA; Department of Discovery Immunology, Genentech, San Francisco, CA, USA; Section of Experimental Haematology, University of Leeds, Leeds, UK

Funding source(s)

Supported by an NIH postdoctoral training grant and by NURSA consortium grant No DK62434 and further supported by NIH grants (HC088093, DK063491, CA52599, P50 GM081892-01A1) and a Foundation Leducq Transatlantic Network Grant.

User review

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5 user reviews

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5 user reviews

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Mano's avatar image Mano's country flag

Mano

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One of the best tool for ChIPseq analysis along with downstream analysis till Motif searching and many more.

Anand Mt's avatar image

Anand Mt

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This is by far best tool for ChIP seq. Thank you so much authors.

Ka-Chun Wong's avatar image

Ka-Chun Wong

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Homer is one of the best available motif discovery software suite on the internet, especially for next-generation sequencing. I highly recommend it.

Fabien Pichon's avatar image Fabien Pichon's country flag

Fabien Pichon

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An amazing tool suite !!! Indispensable !
Orginally created for motif discovery from .fasta file or peak file, you can also use it to compare peaks between different experiments. Better than bedtools because it gives you all details, ideal to create Venn diagrams. You can also use it to extract DNA sequences from regions. This is the swiss knife for genomics !!!!

Claudia Armenise Quartz Bio's avatar image

Claudia Armenise Quartz Bio

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A suite offering a lot of tool, especially for ChIP-sequencing (motif detection, peak overlap, QC...)

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