Difference between revisions of "Sole-Search"
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{{Bioinformatics application | {{Bioinformatics application | ||
|sw summary=Determines statistically significant peaks from ChIP experiments | |sw summary=Determines statistically significant peaks from ChIP experiments | ||
− | |bio domain=ChIP- | + | |bio domain=ChIP-seq |
|bio tech=Illumina, | |bio tech=Illumina, | ||
|created at=University of California-Davis, | |created at=University of California-Davis, |
Latest revision as of 10:36, 11 January 2016
Application data |
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Biological application domain(s) | ChIP-seq |
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Technology | Illumina |
Created at | University of California-Davis |
Maintained? | No |
Input format(s) | FASTQ |
Programming language(s) | Java |
Summary: Determines statistically significant peaks from ChIP experiments
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Description
We have developed integrated peak-calling and analysis software (Sole-Search) which is available through a user-friendly interface and (i) converts raw data into a format for visualization on a genome browser, (ii) outputs ranked peak locations using a statistically based method that overcomes the significant problem of false positives, (iii) identifies the gene nearest to each peak, (iv) classifies the location of each peak relative to gene structure, (v) provides information such as the number of binding sites per chromosome and per gene and (vi) allows the user to determine overlap between two different experiments. In addition, the program performs an analysis of amplified and deleted regions of the input genome.
Part of the Chip-Seq Tool Set
Links
References
To add a reference for Sole-Search, enter the PubMed ID in the field below and click 'Add'.
Search for "Sole-Search" in the SEQanswers forum / BioStar or:
Web Search | Wiki Sites | Scientific |
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