jaccard_findIT_enrichFisher {FindIT2} | R Documentation

## jaccard_findIT_enrichFisher

### Description

jaccard_findIT_enrichFisher

### Usage

    jaccard_findIT_enrichFisher(
      input_feature_id,
      peak_GR,
      TF_GR_database,
      input_TF_id
    )

### Arguments

`input_feature_id` | a character vector which represent peaks set which you want to find influential TF for (same as your find_IT_enrichFisher parameter)
`peak_GR` | a GRange object represent your whole feature location with a column named feature_id, which your input_feature_id should a part of it.
`TF_GR_database` | TF peak GRange with a column named TF_id representing you TF name
`input_TF_id` | TF_id which you want to calculate jaccard index for

### Value

jaccard similarity matrix

### Examples

    data("test_featureSet")
    peak_path <- system.file("extdata", "ATAC.bed.gz", package = "FindIT2")
    peak_GR <- loadPeakFile(peak_path)

    ChIP_peak_path <- system.file("extdata", "ChIP.bed.gz", package = "FindIT2")
    ChIP_peak_GR <- loadPeakFile(ChIP_peak_path)
    ChIP_peak_GR$TF_id <- "AT1G28300"
    result_findIT_enrichFisher <- findIT_enrichFisher(
        input_feature_id = test_featureSet,
        peak_GR = peak_GR,
        TF_GR_database = ChIP_peak_GR
    )

    jaccard_findIT_enrichFisher(
        input_feature_id = test_featureSet,
        peak_GR = peak_GR,
        TF_GR_database = ChIP_peak_GR,
        input_TF_id = result_findIT_enrichFisher$TF_id[1]
    )

[Package FindIT2 version 1.0.3 Index]