millironx/haplotyper-battle-royale
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feat: Add QUASIRECOMB to pipeline

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This commit is contained in:
Thomas A. Christensen II 2023-09-25 18:50:37 -05:00
parent 5cc8867799
commit 444001b499
Signed by: millironx
GPG key ID: 09335146883990B9
1 changed files with 4 additions and 1 deletions
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5
main.nf
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@ -8,7 +8,8 @@ include { HAPLINK_SEQUENCES } from './modules/haplink/sequences'
include { HAPLINK_VARIANTS } from './modules/haplink/variants' include { HAPLINK_VARIANTS } from './modules/haplink/variants'
include { PREDICTHAPLO } from './modules/predicthaplo' include { PREDICTHAPLO } from './modules/predicthaplo'
include { MINIMAP2 } from './modules/minimap2' 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_AMPLICON } from './modules/shorah/amplicon'
include { SHORAH_SHOTGUN } from './modules/shorah/shotgun' include { SHORAH_SHOTGUN } from './modules/shorah/shotgun'
include { VIQUAS } from './modules/viquas' include { VIQUAS } from './modules/viquas'
@ -82,6 +83,8 @@ workflow {
ch_reference ch_reference
) )
QUASIRECOMB( ch_alignments )
VIQUAS( VIQUAS(
ch_alignments, ch_alignments,
ch_reference ch_reference