eLxr packages [ bianca ]
[ 原始碼： chip-seq ]
套件：chip-seq（1.5.5-3 以及其他的）
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.
其他與 chip-seq 有關的套件
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- dep: chip-seq-data
- tools performing common ChIP-Seq data analysis tasks (data)
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- dep: libc6 (>= 2.38)
- GNU C Library: Shared libraries
同時作為一個虛擬套件由這些套件填實： libc6-udeb
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- dep: libmath-round-perl
- Perl extension for rounding numbers