diff --git a/trio_whole_exome_bcbio_crf_template.yaml b/trio_whole_exome_bcbio_crf_template.yaml new file mode 100644 index 0000000000000000000000000000000000000000..0d87d96e7ce02e1bcb19e447d83b0b1a31691985 --- /dev/null +++ b/trio_whole_exome_bcbio_crf_template.yaml @@ -0,0 +1,22 @@ +details: +- algorithm: + platform: illumina + quality_format: standard + aligner: bwa + align_split_size: false + trim_reads: fastp + adapters: [nextera2, polyg] + mark_duplicates: true + realign: false + recalibrate: true + effects: vep + effects_transcripts: all + variantcaller: gatk-haplotype + indelcaller: false + remove_lcr: true + tools_on: + - vep_splicesite_annotations + analysis: variant2 + genome_build: hg38 +upload: + dir: /scratch/u035/project/trio_whole_exome/analysis/output