ATAC-seq

Sep 14, 2023

29de466 · Sep 14, 2023

This branch is 1 commit ahead of g-bk/IFN_heterogeneity:main.

Name	Name	Last commit message	Last commit date
parent directory ..
01_adapter_trim.sh	01_adapter_trim.sh	Create 01_adapter_trim.sh	Sep 14, 2023
02_bwa_mem_align.sh	02_bwa_mem_align.sh	Add files via upload	Sep 14, 2023
03_convert_sam_to_bam.sh	03_convert_sam_to_bam.sh	Add files via upload	Sep 14, 2023
04_mark_duplicates.sh	04_mark_duplicates.sh	Add files via upload	Sep 14, 2023
05_remove_mtReads.sh	05_remove_mtReads.sh	Add files via upload	Sep 14, 2023
06_merge_bam_files.sh	06_merge_bam_files.sh	Add files via upload	Sep 14, 2023
07_bamtobed.sh	07_bamtobed.sh	Add files via upload	Sep 14, 2023
08_2_macs2_peak_calling_for_each_sample.sh	08_2_macs2_peak_calling_for_each_sample.sh	Add files via upload	Sep 14, 2023
08_macs2_peak_calling_for_each_replicate.sh	08_macs2_peak_calling_for_each_replicate.sh	Add files via upload	Sep 14, 2023
09_1_convert_bam_to_bigwig.sh	09_1_convert_bam_to_bigwig.sh	Add files via upload	Sep 14, 2023
09_2_narrowPeak_to_bed.sh	09_2_narrowPeak_to_bed.sh	Add files via upload	Sep 14, 2023
09_3_find_common_peaks.sh	09_3_find_common_peaks.sh	Add files via upload	Sep 14, 2023
10_QC_and_count.Rmd	10_QC_and_count.Rmd	Add files via upload	Sep 14, 2023
11_create_consensus_peaks.sh	11_create_consensus_peaks.sh	Add files via upload	Sep 14, 2023
12_DAR_analysis.Rmd	12_DAR_analysis.Rmd	Add files via upload	Sep 14, 2023
13_integrate_ChIP_peaks.sh	13_integrate_ChIP_peaks.sh	Add files via upload	Sep 14, 2023
14_ATAC-seq_plots.R	14_ATAC-seq_plots.R	Add files via upload	Sep 14, 2023
15_homer_code.sh	15_homer_code.sh	Add files via upload	Sep 14, 2023

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