Macro Name | Description |
---|---|
SAMTOOLS | path of samtools |
REF | path of reference genome |
NORMAL_BAM | path of normal bam |
TUMOR_BAM | path of tumor bam |
VARSCAN | path of varscan.jar |
VARSCAN_PROCESS_SOMATIC_SNP_PARAMS | varscan processSomatic params for snp |
VARSCAN_PROCESS_SOMATIC_INDEL_PARAMS | varscan processSomatic params for indel |
SAMPLE_NAME | sample name |
BAM_READCOUNT | path of bam-readcount |
BAM_READCOUNT_PARAMS | bam-readcount params |
VARSCAN_FPFILTER_PARAMS | varscan fpfilter params |
Zhang Yu
zhangy@sccas.cn