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Propperly formate the file
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MarkusMuck committed Jul 17, 2024
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11 changes: 10 additions & 1 deletion R/data.R
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#' @source Created for R package peakCombiner.
#' @usage data(syn_sample_sheet)
"syn_sample_sheet"

#' Synthetic file with blacklisted regions for peakCombiner
#'
#' Synthetic example blacklisted regions file as tibble with columns "chrom",
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#' @source Created for R package peakCombiner.
#' @usage data(syn_blacklist)
"syn_blacklist"

#' Synthetic data set of genomic coordinates and meta data columns as tibble
#'
#' Synthetic example data set as tibble with columns "chrom", "start", "end",
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#' @source Created for R package peakCombiner.
#' @usage data(syn_data_tibble)
"syn_data_tibble"

#' Synthetic data set of genomic coordinates and meta data columns
#'
#' Synthetic example data set from GenomicRanges object with columns "seqnames",
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#' @source Created for R package peakCombiner.
#' @usage data(syn_data_granges)
"syn_data_granges"

#' Synthetic data set of genomic coordinates and meta data columns
#'
#' Synthetic example data set as minimal required input file with columns
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#' @source Created for R package peakCombiner.
#' @usage data(syn_data_bed)
"syn_data_bed"

#' Synthetic data set of genomic coordinates and meta data columns filtered for
#' control rep 1 sample
#'
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#' @source Created for R package peakCombiner.
#' @usage data(syn_data_treatment01)
"syn_data_treatment01"

#' Synthetic data set for control rep 1 sample in narrowPeak file format
#'
#' Synthetic example data set as minimal required input file with columns
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#' @source Created for R package peakCombiner.
#' @usage data(syn_control_rep1_narrowPeak)
#syn_control_rep1_narrowPeak"

#' Synthetic data set for treatment rep 1 sample in narrowPeak file format
#'
#' Synthetic example data set as minimal required input file with columns
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#' @source Created for R package peakCombiner.
#' @usage data(syn_treatment_rep1_narrowPeak)
"syn_treatment_rep1_narrowPeak"

#' Blacklisted regions from ENCODE for human hg38
#'
#' BED file format with blacklisted regions for human annotation hg38 with
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#' @source Downloaded from ENCODE https://www.encodeproject.org/files/ENCFF356LFX/
#' @usage data(blacklist_hg38)
"blacklist_hg38"

#' Blacklisted regions from ENCODE for mouse mm10
#'
#' BED file format with blacklisted regions for mouse annotation mm10 with
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#'
#' @source Downloaded from ENCODE https://www.encodeproject.org/files/ENCFF547MET/
#' @usage data(blacklist_mm10)
"blacklist_mm10"
"blacklist_mm10"

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