Merge branch '15_Annotation_diff_bind' into 'master'
Resolve "Add in current chip-analysis functionality." Closes #15 See merge request BICF/Astrocyte/chipseq_analysis!18
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- .gitlab-ci.yml 27 additions, 9 deletions.gitlab-ci.yml
- astrocyte_pkg.yml 6 additions, 5 deletionsastrocyte_pkg.yml
- docs/index.md 19 additions, 22 deletionsdocs/index.md
- test_data/design_diff_PE.txt 7 additions, 0 deletionstest_data/design_diff_PE.txt
- test_data/design_diff_SE.txt 9 additions, 0 deletionstest_data/design_diff_SE.txt
- test_data/fetch_test_data.sh 10 additions, 0 deletionstest_data/fetch_test_data.sh
- workflow/conf/biohpc.config 32 additions, 16 deletionsworkflow/conf/biohpc.config
- workflow/main.nf 82 additions, 1 deletionworkflow/main.nf
- workflow/scripts/annotate_peaks.R 74 additions, 0 deletionsworkflow/scripts/annotate_peaks.R
- workflow/scripts/diff_peaks.R 22 additions, 17 deletionsworkflow/scripts/diff_peaks.R
- workflow/scripts/motif_search.py 96 additions, 0 deletionsworkflow/scripts/motif_search.py
- workflow/scripts/overlap_peaks.py 14 additions, 4 deletionsworkflow/scripts/overlap_peaks.py
- workflow/scripts/runChipseeker.R 0 additions, 56 deletionsworkflow/scripts/runChipseeker.R
- workflow/scripts/runMemechip.py 0 additions, 91 deletionsworkflow/scripts/runMemechip.py
- workflow/tests/test_annotate_peaks.py 28 additions, 0 deletionsworkflow/tests/test_annotate_peaks.py
- workflow/tests/test_call_peaks_macs.py 7 additions, 5 deletionsworkflow/tests/test_call_peaks_macs.py
- workflow/tests/test_convert_reads.py 4 additions, 5 deletionsworkflow/tests/test_convert_reads.py
- workflow/tests/test_diff_peaks.py 39 additions, 0 deletionsworkflow/tests/test_diff_peaks.py
- workflow/tests/test_experiment_design.py 8 additions, 6 deletionsworkflow/tests/test_experiment_design.py
- workflow/tests/test_experiment_qc.py 2 additions, 2 deletionsworkflow/tests/test_experiment_qc.py
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