{ "_id": "6a2a5e427b7a29ca6003c6cf", "Package": "FindIT2", "Title": "find influential TF and Target based on multi-omics data", "Version": "1.18.0", "Authors@R": "c(\nperson(\"Guandong\", \"Shang\", role = c(\"aut\", \"cre\"),\nemail = \"shangguandong1996@163.com\",\ncomment = c(ORCID = \"0000-0002-9509-0314\"))\n)", "Description": "This package implements functions to find influential TF\nand target based on different input type. It have five module:\nMulti-peak multi-gene annotaion(mmPeakAnno module), Calculate\nregulation potential(calcRP module), Find influential Target\nbased on ChIP-Seq and RNA-Seq data(Find influential Target\nmodule), Find influential TF based on different input(Find\ninfluential TF module), Calculate peak-gene or peak-peak\ncorrelation(peakGeneCor module). And there are also some other\nuseful function like integrate different source information,\ncalculate jaccard similarity for your TF.", "License": "Artistic-2.0", "URL": "https://github.com/shangguandong1996/FindIT2", "BugReports": "https://support.bioconductor.org/t/FindIT2", "biocViews": "Software, Annotation, ChIPSeq, ATACSeq, GeneRegulation,\nMultipleComparison, GeneTarget", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.1.2", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "Config/pak/sysreqs": "make libbz2-dev libicu-dev liblzma-dev libpng-dev\nlibxml2-dev libssl-dev xz-utils zlib1g-dev", "Repository": "https://bioc-release.r-universe.dev", "Date/Publication": "2026-04-28 12:56:26 UTC", "RemoteUrl": "https://github.com/bioc/FindIT2", "RemoteRef": "RELEASE_3_23", "RemoteSha": "e7a0d39113ce7a959d424ce2c354c3d3f56de51a", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-11 06:56:26 UTC", "User": "root" }, "Author": "Guandong Shang 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"headings": [ "Basics", "Install FindIT2", "Citation", "Acknowledgments", "Introduction", "Multi-peak multi-gene annotation", "annotate peak using nearest mode", "find realted peak using gene Bound mode", "find related peak using gene scan mode", "Calculate regulation potential(RP)", "calculate RP using mmAnno", "Calculate RP using bw file", "Calculate RP using mmAnno result and peakScore matrix", "Find influential target", "Find influential TF", "Find IT of input peak based on wilcox test", "Find IT of input peak based on fisher test", "Find IT of input genes based on fisher test", "Find IT of input genes based on TF hit", "Find IT of input genes based on region RP", "Find IT of input genes based on motif activity response", "integrate result", "Calculate feature correlation", "Calculate peak gene correlation", "Calculate enhancer promoter correlation", "Integrate result", "Session info", "References" ], "created": "2021-06-08 08:49:05", "modified": "2022-05-10 08:24:03", "commits": 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