{"text_format":"3","workbook":"xls","n_sheets":5,"sheets":["Notes","Features","Features (summary)","Peaks","Peaks (summary)"],"read":"whole","date_system":"1900","formulas":"cached_only"}

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["RnaChipIntegrator 0.5.0-alpha.2"]
[]
["Find nearest peaks to genomic features (and vice versa)"]
[]
["Bioinformatics Core Facility, Faculty of Life Sciences, University of Manchester"]
["http://fls-bioinformatics-core.github.com/RnaChipIntegrator/"]
["Run on 2015-10-29"]
[]
["Settings"]
["Input features file","mm9_canonical_genes.tsv"]
["Input peaks file","mm9_peaks.txt"]
["Maximum cutoff distance (bp)",50000]
["Maximum no. of hits to report",4]
["Promoter region (bp from TSS)","-1000 to 100"]
["Distances calculated from","TSS only"]
["Only use differentially expressed features","No"]
[]
["'Features': nearest feature to each peak"]
["Column","Description"]
["chr","chromosome"]
["start","peak start position"]
["end","peak end position"]
["feature.id","feature ID"]
["strand","feature strand direction"]
["TSS","feature TSS position"]
["TES","feature TES position"]
["dist_closest","closest distance between peak and feature"]
["dist_TSS","distance between peak and feature TSS"]
["dist_TES","distance between peak and feature TES"]
["direction","'U' if hit is upstream, 'D' if downstream, '.' if overlapped"]
["overlap_feature","1 if peak overlaps the feature, 0 if not"]
["overlap_promoter","1 if peak overlaps the promoter region, 0 if not"]
[]
["'Features (summary)' lists the 'top' result (i.e. closest peak/feature pair) for each peak"]
[]
["'Peaks': nearest peaks to each feature"]
["Column","Description"]
["feature.id","feature ID"]
["feature.chr","chromosome of the feature"]
["feature.start","feature start position"]
["feature.end","feature end position"]
["feature.strand","feature strand direction"]
["peak.chr","chromosome of the peak"]
["peak.start","peak start position"]
["peak.end","peak end position"]
["order","the 'order' of the feature/peak pair (e.g. '1 of 4')"]
["dist_closest","closest distance between peak and feature"]
["dist_TSS","distance between peak and feature TSS"]
["dist_TES","distance between peak and feature TES"]
[]
["'Peaks (summary)' lists the 'top' result (i.e. closest feature/peak pair) for each feature"]

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