diff --git a/main.nf b/main.nf index 8cf7dd2..4042eeb 100755 --- a/main.nf +++ b/main.nf @@ -8,7 +8,8 @@ include { HAPLINK_SEQUENCES } from './modules/haplink/sequences' include { HAPLINK_VARIANTS } from './modules/haplink/variants' include { PREDICTHAPLO } from './modules/predicthaplo' include { MINIMAP2 } from './modules/minimap2' -include { NANOFILT } form './modules/nanofilt' +include { NANOFILT } from './modules/nanofilt' +include { QUASIRECOMB } from './modules/quasirecomb' include { SHORAH_AMPLICON } from './modules/shorah/amplicon' include { SHORAH_SHOTGUN } from './modules/shorah/shotgun' include { VIQUAS } from './modules/viquas' @@ -82,6 +83,8 @@ workflow { ch_reference ) + QUASIRECOMB( ch_alignments ) + VIQUAS( ch_alignments, ch_reference