Ran chr22 w/ DHS only
Note that there's no h3k27ac columns
(abc-env) [atan5133@sh03-ln05 login /oak/stanford/groups/engreitz/Users/atan5133/ABC-Enhancer-Gene-Prediction]$ zcat results/K562_chr22/Predictions/EnhancerPredictionsAllPutative.tsv.gz | head -1
chr start end name class activity_base activity_base_enh activity_base_squared_enh normalized_dhs_enh TargetGene TargetGeneTSS TargetGeneExpression TargetGenePromoterActivityQuantile TargetGeneIsExpressed TargetGeneEnsembl_ID normalized_dhs_prom distance isSelfPromoter powerlaw_contact powerlaw_contact_reference hic_contact hic_contact_pl_scaled hic_pseudocount hic_contact_pl_scaled_adj ABC.Score.Numerator ABC.Score powerlaw.Score.Numerator powerlaw.Score CellType hic_contact_squared
Full ABC genomewide CRISPR Benchmark:
For good measure, i tested different combos (DHS only, ATAC + H3K27ac) against the reference predictions that we've made before. Results are exactly the same.
Change the column names to make things more clear for downstream applications
See column renaming here
Test Plan
Ran chr22 w/ DHS + H3k27ac
Ran chr22 w/ DHS only Note that there's no h3k27ac columns
Full ABC genomewide CRISPR Benchmark: For good measure, i tested different combos (DHS only, ATAC + H3K27ac) against the reference predictions that we've made before. Results are exactly the same.