macs14（macs14）.docVIP

macs14（macs14） * introduction With the development of sequencing techniques, CHIP-Seq has become a research genome-wide -DNA protein interaction is more popular. In order to make up for the shortcomings of the powerful ChIP-Seq analysis method, We propose a new algorithm named Model-based Analysis of ChIP-Seq (MACS), for the analysis of transcription factor binding sites. MACS captures the Influence of genome complexity to evaluate the significant enrichment of ChIP region, MACS tag sequencing through a combination of position and direction, with improved spatial resolution sites. MACS can be easily used in the ChIP-Seq data, or to increase the specificity of the sample with control. Usage: Macs -t tfile [options] Option: --version display program version number and exit. 1.3.2 -h, --help display this help message and exit. -t TFILE, --treatment=TFILE ChIP-seq treatment files. required -c CFILE, --control=CFILE Control file --name=NAME experiment, used to generate the output file name. The default is NA --format=FORMAT tag file format. ELAND or BED. The default is BED The --gsize=GSIZE genome size, default 2700000000 --tsize=TSIZE Tag size, default 25 --bw=BW Band width, this value is used to construct the shifting model. If --nomodel is set, the value will be set to two times the width of the window scanning. The default is 300 --pvalue=PVALUE is used for peak detection of the Pvalue threshold, the default 1e-5 --mfold=MFOLD has high confidence enriched areas to construct the model of background. The default is 32 Whether --wig saves each BP shifted original tag count into a wig file. This process is time-consuming and space. --verbose=VERBOSE set the verbose level. 0: only display key information, 1: display additional warning information, 2: display processing, 3: display debugging information. The default is 2 Whether --nolambda with local lambda. If True, MACS will use the lambda_background as local_lambda --lambdaset=LAMBDASET is used to calculate the dynamic