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Update and rename SEACR_1.1.sh to SEACR_1.2.sh
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mpmeers authored Oct 30, 2019
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8 changes: 4 additions & 4 deletions SEACR_1.1.sh → SEACR_1.2.sh
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echo "
SEACR: Sparse Enrichment Analysis for CUT&RUN
Usage: bash SEACR_1.1.sh <experimental bedgraph>.bg [<control bedgraph>.bg | <FDR threshold>] ["norm" | "non"] ["relaxed" | "stringent"] output prefix
Usage: bash SEACR_1.2.sh <experimental bedgraph>.bg [<control bedgraph>.bg | <FDR threshold>] ["norm" | "non"] ["relaxed" | "stringent"] output prefix
Description of input fields:
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Field 6: Region representing the farthest upstream and farthest downstream bases within the denoted coordinates that are represented by the maximum bedgraph signal
Examples:
bash SEACR_1.1.sh target.bedgraph IgG.bedgraph norm stringent output
bash SEACR_1.2.sh target.bedgraph IgG.bedgraph norm stringent output
Calls enriched regions in target data using normalized IgG control track with stringent threshold
bash SEACR_1.1.sh target.bedgraph IgG.bedgraph non relaxed output
bash SEACR_1.2.sh target.bedgraph IgG.bedgraph non relaxed output
Calls enriched regions in target data using non-normalized IgG control track with relaxed threshold
bash SEACR_1.1.sh target.bedgraph 0.01 non stringent output
bash SEACR_1.2.sh target.bedgraph 0.01 non stringent output
Calls enriched regions in target data by selecting the top 1% of regions by area under the curve (AUC)
"
exit 1
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