Files in FrietzeLabUVM/peaksat
Peak saturation processing and analysis
.DS_Store
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
NEWS
R/cap_reads.R
R/convergence.R
R/estimate_depth.R
R/load_counts.R
R/onAttach.R
R/peaksat_config.R
R/plot_saturation.R
R/qsub_and_wait.R
R/script_helpers.R
R/submit_peaksat_jobs.R
R/submit_pool_jobs.R
R/vars.R
README.md
dev_CG_cong.R
dev_peaksat_1.0.R
docs/.DS_Store
docs/index.html
inst/extdata/example_peaksat_output/results_qValue_010/peak_saturation.MCF10AT1_H4K5ac_rep1.Aligned.sortedByCoord.out_qValue_010/counts_signalValue_1/subset.010.2.bam.peak_count
inst/extdata/example_peaksat_output/results_qValue_010/peak_saturation.MCF10AT1_H4K5ac_rep1.Aligned.sortedByCoord.out_qValue_010/counts_signalValue_1/subset.010.2.bam.peak_width
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publication_source_code/MCF10_H4Kac_Nov2022/results_qValue_010/peak_saturation.MCF10DCIS_H4K8ac_rep2.Aligned.sortedByCoord.out_qValue_010/subset.100.1_summits.bed
publication_source_code/Peaksat_estimation.Rmd
publication_source_code/peaksat_README.txt
publication_source_code/peaksat_paper.CTCF.R
publication_source_code/peaksat_paper.Rmd
publication_source_code/peaksat_paper.figure3.Rmd
publication_source_code/processing_scripts/run_peaksat.10a_CTCF.R
publication_source_code/processing_scripts/run_peaksat.10a_H4ac.R
publication_source_code/processing_scripts/run_peaksat.10a_H4ac.multi_input.R
publication_source_code/processing_scripts/run_peaksat.10a_H4ac.phase1.R
publication_source_code/processing_scripts/run_peaksat.10a_H4ac.phase1.pooled.R
publication_source_code/processing_scripts/run_peaksat.10a_H4ac_phase1_2_and_3.R
publication_source_code/processing_scripts/run_peaksat.10a_H4ac_phase1_2_and_3.vs_input.60M.R
publication_source_code/processing_scripts/run_peaksat.10a_H4ac_phase1_2_and_3.vs_input.R
publication_source_code/processing_scripts/run_peaksat.10a_H4ac_phase1_2_and_3.vs_input.matched.R
publication_source_code/processing_scripts/run_peaksat.10a_H4ac_phase1_and_2.R
publication_source_code/processing_scripts/run_peaksat.10a_H4ac_phase1_and_2.pooled.R
publication_source_code/processing_scripts/run_peaksat.10a_H4ac_phase1_vs_matched_input.R
publication_source_code/processing_scripts/run_peaksat.atac.R
publication_source_code/processing_scripts/run_peaksat.cnr.R
tests/testthat.R
vignettes/peaksat_overview.Rmd
