First set of scripts for running test data. (fb4cacb4) · Commits · BICF / Astrocyte / atacseq_analysis · GitLab

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BICF
Astrocyte
atacseq_analysis
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fb4cacb4

Commit fb4cacb4 authored 6 years ago by

Venkat Malladi

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First set of scripts for running test data.

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README.md 17 additions, 0 deletions

README.md
astrocyte_pkg.yml 151 additions, 0 deletions

astrocyte_pkg.yml
docs/design_example.csv 7 additions, 0 deletions

docs/design_example.csv
docs/index.md 66 additions, 0 deletions

docs/index.md
pytest.ini 2 additions, 0 deletions

pytest.ini
test_data/design_ENCSR265ZXX_SE.txt 4 additions, 0 deletions

test_data/design_ENCSR265ZXX_SE.txt
test_data/design_ENCSR451NAE_PE.txt 3 additions, 0 deletions

test_data/design_ENCSR451NAE_PE.txt
test_data/fetch_test_data.sh 17 additions, 0 deletions

test_data/fetch_test_data.sh
vizapp/server.R 152 additions, 0 deletions

vizapp/server.R
vizapp/ui.R 152 additions, 0 deletions

vizapp/ui.R
workflow/conf/biohpc.config 92 additions, 0 deletions

workflow/conf/biohpc.config
workflow/main.nf 406 additions, 0 deletions

workflow/main.nf
workflow/nextflow.config 5 additions, 0 deletions

workflow/nextflow.config
workflow/scripts/atac_qc.py 110 additions, 0 deletions

workflow/scripts/atac_qc.py
workflow/scripts/call_peaks_macs.py 281 additions, 0 deletions

workflow/scripts/call_peaks_macs.py
workflow/scripts/check_design.py 172 additions, 0 deletions

workflow/scripts/check_design.py
workflow/scripts/convert_reads.py 124 additions, 0 deletions

workflow/scripts/convert_reads.py
workflow/scripts/experiment_design.py 93 additions, 0 deletions

workflow/scripts/experiment_design.py
workflow/scripts/experiment_qc.py 180 additions, 0 deletions

workflow/scripts/experiment_qc.py
workflow/scripts/map_qc.py 292 additions, 0 deletions

workflow/scripts/map_qc.py

with 2326 additions and 0 deletions

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