Fix issues and make improvements from first release
Merge branch 'dev_Jules' into 'master' Fix issues and improvements from first release See merge request !3
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- assets/multiqc_config.yaml 32 additions, 6 deletionsassets/multiqc_config.yaml
- bin/DTM/data_prepare.pl 310 additions, 0 deletionsbin/DTM/data_prepare.pl
- bin/demuxStatsFromXML.R 33 additions, 30 deletionsbin/demuxStatsFromXML.R
- bin/extractInfoForDemuxStats.pl 18 additions, 3 deletionsbin/extractInfoForDemuxStats.pl
- conf/base.config 83 additions, 14 deletionsconf/base.config
- conf/functions.config 10 additions, 2 deletionsconf/functions.config
- conf/prod.config 3 additions, 0 deletionsconf/prod.config
- conf/report.config 2 additions, 2 deletionsconf/report.config
- conf/test.config 6 additions, 3 deletionsconf/test.config
- modules/local/module_core.nf 2 additions, 30 deletionsmodules/local/module_core.nf
- modules/local/module_dna.nf 8 additions, 4 deletionsmodules/local/module_dna.nf
- modules/local/module_rna.nf 108 additions, 0 deletionsmodules/local/module_rna.nf
- nextflow.config 9 additions, 0 deletionsnextflow.config
- sub-workflows/local/core_pipeline.nf 1 addition, 1 deletionsub-workflows/local/core_pipeline.nf
- sub-workflows/local/dna_qc.nf 2 additions, 2 deletionssub-workflows/local/dna_qc.nf
- sub-workflows/local/rna_qc.nf 87 additions, 1 deletionsub-workflows/local/rna_qc.nf
- workflow/illumina_qc.nf 18 additions, 2 deletionsworkflow/illumina_qc.nf
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