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  "Title": "Bias-free Footprint Enrichment Test",
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  "Authors@R": "c(person(\"Ahrim\", \"Youn\", email = \"Ahrim.Youn@jax.org\",\nrole = c(\"aut\", \"cre\")), person(\"Eladio\", \"Marquez\",\nemail = \"Eladio.Marquez@jax.org\", role = c(\"aut\")),\nperson(\"Nathan\",  \"Lawlor\", email = \"nathan.lawlor03@gmail.com\",\nrole = c(\"aut\")), person(\"Michael\", \"Stitzel\",\nemail = \"Michael.Stitzel@jax.org\", role = c(\"aut\")),person(\"Duygu\",\n\"Ucar\", email = \"Duygu.Ucar@jax.org\", role = c(\"aut\")))",
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  "Description": "BiFET identifies TFs whose footprints are over-represented\nin target regions compared to background regions after\ncorrecting for the bias arising from the imbalance in read\ncounts and GC contents between the target and background\nregions. For a given TF k, BiFET tests the null hypothesis that\nthe target regions have the same probability of having\nfootprints for the TF k as the background regions while\ncorrecting for the read count and GC content bias. For this, we\nuse the number of target regions with footprints for TF k, t_k\nas a test statistic and calculate the p-value as the\nprobability of observing t_k or more target regions with\nfootprints under the null hypothesis.",
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      "title": "Function to calculate p-value testing if footprints of a TF are over-represented in the target set of peaks compared to the background set of peaks correcting for the bias arising from the imbalance of GC-content and read counts between target and background set",
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        "1. Obtaining a Peak File",
        "2. Obtaining a Matrix of Footprint Calls",
        "3. Calculating enrichment p-value",
        "Citing BiFET",
        "References"
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