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32 lines
1.1 KiB
Text
32 lines
1.1 KiB
Text
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process {
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publishDir = { "${params.outdir}/${task.process.tokenize(':')[-1].tokenize('_')[0].toLowerCase()}" }
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withName: CELLRANGER_MKGTF {
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ext.args = '--attribute=gene_biotype:protein_coding \
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--attribute=gene_biotype:lincRNA \
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--attribute=gene_biotype:antisense \
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--attribute=gene_biotype:IG_LV_gene \
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--attribute=gene_biotype:IG_V_gene \
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--attribute=gene_biotype:IG_V_pseudogene \
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--attribute=gene_biotype:IG_D_gene \
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--attribute=gene_biotype:IG_J_gene \
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--attribute=gene_biotype:IG_J_pseudogene \
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--attribute=gene_biotype:IG_C_gene \
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--attribute=gene_biotype:IG_C_pseudogene \
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--attribute=gene_biotype:TR_V_gene \
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--attribute=gene_biotype:TR_V_pseudogene \
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--attribute=gene_biotype:TR_D_gene \
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--attribute=gene_biotype:TR_J_gene \
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--attribute=gene_biotype:TR_J_pseudogene \
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--attribute=gene_biotype:TR_C_gene'
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}
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withName: CELLRANGER_COUNT {
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ext.args = '--chemistry SC3Pv3'
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}
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}
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