feat: Add CliqueSNV haplotype calling to pipeline

main.nf

@@ -1,5 +1,6 @@
 #!/usr/bin/env nextflow
 
+include { CLIQUESNV } from './modules/cliquesnv'
 include { EFETCH } from './modules/efetch'
 include { HAPLINK_HAPLOTYPES as HAPLINK_ML_HAPLOTYPES } from './modules/haplink/haplotypes'
 include { HAPLINK_HAPLOTYPES as HAPLINK_RAW_HAPLOTYPES } from './modules/haplink/haplotypes'
@@ -74,4 +75,9 @@ workflow {
         ch_alignments,
         ch_reference
     )
+
+    CLIQUESNV(
+        ch_alignments,
+        'snv-pacbio'
+    )
 }