Prepare Junke peak call region 01

View files

Set environment

source ../run_config_project.sh
show_env

You are working on             Duke Server: RCC
BASE DIRECTORY (FD_BASE):      /data/reddylab/Kuei
REPO DIRECTORY (FD_REPO):      /data/reddylab/Kuei/repo
WORK DIRECTORY (FD_WORK):      /data/reddylab/Kuei/work
DATA DIRECTORY (FD_DATA):      /data/reddylab/Kuei/data
CONTAINER DIR. (FD_SING):      /data/reddylab/Kuei/container

You are working with           ENCODE FCC
PATH OF PROJECT (FD_PRJ):      /data/reddylab/Kuei/repo/Proj_ENCODE_FCC
PROJECT RESULTS (FD_RES):      /data/reddylab/Kuei/repo/Proj_ENCODE_FCC/results
PROJECT SCRIPTS (FD_EXE):      /data/reddylab/Kuei/repo/Proj_ENCODE_FCC/scripts
PROJECT DATA    (FD_DAT):      /data/reddylab/Kuei/repo/Proj_ENCODE_FCC/data
PROJECT NOTE    (FD_NBK):      /data/reddylab/Kuei/repo/Proj_ENCODE_FCC/notebooks
PROJECT DOCS    (FD_DOC):      /data/reddylab/Kuei/repo/Proj_ENCODE_FCC/docs
PROJECT LOG     (FD_LOG):      /data/reddylab/Kuei/repo/Proj_ENCODE_FCC/log
PROJECT REF     (FD_REF):      /data/reddylab/Kuei/repo/Proj_ENCODE_FCC/references
PROJECT IMAGE   (FP_PRJ_SIF):  /data/reddylab/Kuei/container/project/singularity_proj_encode_fcc.sif
PROJECT CONF.   (FP_CNF):      /data/reddylab/Kuei/repo/Proj_ENCODE_FCC/scripts/config_project.sh

View files

ls -d ${FD_DAT}/processed/fcc_enhancer_Junke*

/data/reddylab/Kuei/repo/Proj_ENCODE_FCC/data/processed/fcc_enhancer_Junke_zscore_240415
/data/reddylab/Kuei/repo/Proj_ENCODE_FCC/data/processed/fcc_enhancer_Junke_zscore_240513_astarr_filter
/data/reddylab/Kuei/repo/Proj_ENCODE_FCC/data/processed/fcc_enhancer_Junke_zscore_240611

FD_INP=${FD_DAT}/processed/fcc_enhancer_Junke_zscore_240611
ls ${FD_INP}/*zip | xargs -n 1 basename

ATAC_STARR_seq_100bp_genomic_bin_in_ATAC_seq_peak_cpm_20_avg_DNA_lib.zip
eSTARR_seq.zip
LentiMPRA_DNA_filtering_avg_DNA_lib_count_10.zip
TilingMPRA_ENCSR363XER_DNA_filtering_avg_DNA_lib_count_10.zip
TilingMPRA_ENCSR394HXI_DNA_filtering_avg_DNA_lib_count_10.zip
TilingMPRA_ENCSR917SFD_DNA_filtering_avg_DNA_lib_count_10.zip
WHG_STARR_TR.zip