get_CORCES2020_scATACseq_peaks: scATACseq peaks from human brain tissue

In RajLabMSSM/echoannot: echoverse module: Annotate fine-mapping results

scATACseq peaks from human brain tissue

Description

Each row represents an individual peak identified in the single-cell ATAC-seq data.

Usage

get_CORCES2020_scATACseq_peaks()

Details

Data originally from Corces et al. (bioRxiv), as of May 2020. Specifically: STable5_Features_scATAC-seq_Peaks_all

Source

https://doi.org/10.1038/s41588-020-00721-x

See Also

Other CORCES2020: CORCES2020_get_ATAC_peak_overlap(), CORCES2020_get_hichip_fithichip_overlap(), CORCES2020_prepare_bulkATAC_peak_overlap(), CORCES2020_prepare_scATAC_peak_overlap(), get_CORCES2020_bulkATACseq_peaks(), get_CORCES2020_cicero_coaccessibility(), get_CORCES2020_hichip_fithichip_loop_calls(), get_CORCES2020_scATACseq_celltype_peaks()

Examples

## Not run: 
dat <- readxl::read_excel(
    file.path(
        "~/Desktop/Fine_Mapping/echolocatoR/annotations",
        "Coceres_2020/STable5_Features_scATAC-seq_Peaks_all.xlsx"
    ),
    skip = 18
)
CORCES2020_scATACseq_peaks <- data.table::data.table(dat)

#### piggyback ####
tmp <- file.path(tempdir(), "CORCES2020_scATACseq_peaks.tsv.gz")
data.table::fwrite(CORCES2020_scATACseq_peaks, tmp, sep = "\t")
piggyback::pb_upload(
    file = tmp,
    repo = "RajLabMSSM/echoannot"
)

## End(Not run)

RajLabMSSM/echoannot documentation built on Oct. 26, 2023, 2:41 p.m.