R: Statistical tools for the analysis of ChIP-seq data

# Statistical tools for the analysis of ChIP-seq data

## Documentation for package ‘CSAR’ version 1.64.0

- DESCRIPTION file
- User guides, package vignettes and other documentation

## Help Pages

CSAR-package | Statistical tools for the analysis of ChIP-seq data
ChIPseqScore | Calculate read-enrichment scores for each nucleotide position
controlSEP3_test | Partial dataset of a ChIP-seq experiment
distance2Genes | Calculate relative positions of read-enriched regions regarding gene position
genesWithPeaks | Provide table of genes with read-enriched regions, and their location
getPermutatedWinScores | Obtain the read-enrichment score distribution under the null hypothesis
getThreshold | Calculate the threshold value corresponding to control FDR at a desired level
LoadBinCSAR | Save the read-enrichment scores at each nucleotide position in a .wig file format
loadMappedReads | Load mapped reads
mappedReads2Nhits | Calculate number of overlapped extended reads per nucleotide position
mappedReads2Nhits_chr | Calculate number of overlapped extended reads per nucleotide position
permutatedWinScores | Calculate scores for permutated read-enriched regions
pos2Nhits | Calculate number of overlapped extended reads per nucleotide position
pos2Nhits_old | Calculate number of overlapped extended reads per nucleotide position
sampleSEP3_test | Partial dataset of a ChIP-seq experiment
score2wig | Save the read-enrichment scores at each nucleotide position in a .wig file format
score_chr | Calculate read-enrichment scores for each nucleotide position
sigWin | Calculate regions of read-enrichment
sigWin_chr | Calculate regions of read-enrichment
TAIR8_genes_test | Partial dataset of a ChIP-seq experiment