Update Neo reference data paths

nf-core · Feb 15, 2024 · e7ec180 · e7ec180
1 parent d00b41f
commit e7ec180
Showing 1 changed file with 4 additions and 5 deletions.
diff --git a/conf/hmf_data.config b/conf/hmf_data.config
@@ -25,7 +25,7 @@ params {
             // ORANGE
             cohort_mapping                = 'orange/cohort_mapping.tsv'
             // Hartwig cohort RNA data
-            cohort_tpm_medians            = 'neo/tpm_cohort/hmf_tpm_medians.csv'
+            cohort_tpm_medians            = 'neo/tpm_cohort/hmf_tpm_medians.37.csv'
             cohort_percentiles            = 'orange/cohort_percentiles.tsv'
             alt_sj_distribution           = 'rna_pipeline/isofox.hmf_3444.alt_sj_cohort.37.csv'
             gene_exp_distribution         = 'rna_pipeline/isofox.hmf_3444.gene_distribution.37.csv'
@@ -77,12 +77,11 @@ params {
             // LILAC
             lilac_resources               = 'dna_pipeline/immune/'
             // Neo
-            neo_resources                 = 'neo/'
+            neo_resources                 = 'neo/binding/'
             // ORANGE
             cohort_mapping                = 'orange/cohort_mapping.tsv'
-            // RNA cohort data
-            cohort_percentiles            = 'orange/cohort_percentiles.tsv'
-            cohort_tpm_medians            = 'rna_pipeline/cohort_tpm_medians.tsv'
+            // Hartwig cohort RNA data
+            cohort_tpm_medians            = 'neo/tpm_cohort/hmf_tpm_medians.38.csv'
             cohort_percentiles            = 'orange/cohort_percentiles.tsv'
             alt_sj_distribution           = 'rna_pipeline/isofox.hmf_3444.alt_sj_cohort.38.csv'
             gene_exp_distribution         = 'rna_pipeline/isofox.hmf_3444.gene_distribution.38.csv'