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[ Source: chip-seq  ]

Package: chip-seq (1.5.5-3 and others)

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tools performing common ChIP-Seq data analysis tasks

The ChIP-Seq software provides a set of tools performing common genome- wide ChIP- seq analysis tasks, including positional correlation analysis, peak detection, and genome partitioning into signal-rich and signal-poor regions. These tools exist as stand-alone C programs and perform the following tasks:

 1. Positional correlation analysis and generation of an aggregation
    plot (AP) (chipcor),
 2. Extraction of specific genome annotation features around reference
    anchor points (chipextract),
 3. Read centering or shifting (chipcenter),
 4. Narrow peak caller using a fixed width peak size (chippeak),
 5. Broad peak caller used for large regions of enrichment (chippart),
 6. Feature selection tool based on a read count threshold (chipscore).

Because the ChIP-Seq tools are primarily optimized for speed, they use their own compact format for ChIP-seq data representation called SGA (Simplified Genome Annotation). SGA is a line-oriented, tab-delimited plain text format.

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Download chip-seq

Download for all available architectures
Architecture Version Package Size Installed Size Files
alpha (unofficial port) 1.5.5-3 105.6 kB553.0 kB [list of files]
amd64 1.5.5-3 98.7 kB496.0 kB [list of files]
arm64 1.5.5-3 97.5 kB456.0 kB [list of files]
armel 1.5.5-3 91.2 kB418.0 kB [list of files]
armhf 1.5.5-3 90.3 kB358.0 kB [list of files]
hppa (unofficial port) 1.5.5-3 97.6 kB455.0 kB [list of files]
i386 1.5.5-3 98.1 kB510.0 kB [list of files]
ia64 (unofficial port) 1.5.5-3 115.7 kB670.0 kB [list of files]
m68k (unofficial port) 1.5.5-3 88.4 kB461.0 kB [list of files]
mips64el 1.5.5-3 99.7 kB492.0 kB [list of files]
ppc64 (unofficial port) 1.5.5-3 100.5 kB1,047.0 kB [list of files]
ppc64el 1.5.5-3 104.5 kB1,040.0 kB [list of files]
riscv64 1.5.5-3+b1 102.4 kB417.0 kB [list of files]
s390x 1.5.5-3 93.0 kB467.0 kB [list of files]
sh4 (unofficial port) 1.5.5-3 104.5 kB385.0 kB [list of files]
sparc64 (unofficial port) 1.5.5-3 87.7 kB496.0 kB [list of files]
x32 (unofficial port) 1.5.5-3 96.2 kB466.0 kB [list of files]