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, 18:14, 23 October 2014
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| ====Additional Required User Config Files Settings==== | | ====Additional Required User Config Files Settings==== |
− | The following Config File Settings must be specified by the user:
| + | {| class="wikitable" style="margin: 1em 1em 1em 0; background-color: #f9f9f9; border: 1px #aaa solid; border-collapse: collapse;" border="1" |
− | * CHRS = space separated list of chromosomes you want
| + | ! Configuration Key !! Command-line Flag !! Value Description !! Default Value |
− | * BAM_INDEX = path to the Index File of BAMs
| + | |- |
| + | |CHRS||--chrs || pace separated list of chromosomes to process || 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 X |
| + | |- |
| + | | BAM_LIST|| --list || path to the [[#BAM List File|BAM List File]] || $(OUT_DIR)/bam.list |
| + | |} |
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| ====Targeted/Exome Sequencing Settings==== | | ====Targeted/Exome Sequencing Settings==== |