Changes between Version 41 and Version 42 of SOP/CallingVariantsRNAseq
- Timestamp:
- 08/16/17 13:46:35 (7 years ago)
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SOP/CallingVariantsRNAseq
v41 v42 70 70 {{{java -jar /usr/local/share/picard-tools/picard.jar AddOrReplaceReadGroups I=output.sam O=rg_added_sorted.bam SO=coordinate RGID=ID_NAME RGLB=library RGPL=illumina RGPU=identifier RGSM=sample_name}}} 71 71 72 '''Mark duplicate reads'''. 72 '''Mark duplicate reads''' 73 73 74 {{{java -jar /usr/local/share/picard-tools/picard.jar MarkDuplicates I=rg_added_sorted.bam O=dedupped.bam CREATE_INDEX=true VALIDATION_STRINGENCY=SILENT M=output.metrics}}}