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Table 2 Performance evaluation of MAC on 10 TCGA tumor samples (LUSC)

From: MAC: identifying and correcting annotation for multi-nucleotide variations

Sample barcode Num. of input SNVs Num. of BMs Size of the largest BM No Annotation Annovar VEP Snpeff
Memory (Kb) Run time (min:sec) Num. of BMCs Memory (Kb) Run time (min:sec) Num. of BMCs Memory (Kb) Run time (min:sec) Num. of BMCs Memory (Kb) Run time (min:sec)
TCGA-18-3409-01A-01D-0983-08 3910 303 4 1123088 02:18.1 108 5185632 01:47.5 108 6701680 10:08.5 112 13766144 05:00.4
TCGA-22-5473-01A-01D-1632-08 944 21 3 652336 01:05.9 6 5180416 01:10.1 6 5017200 02:35.5 6 13654800 04:10.1
TCGA-33-4566-01A-01D-1441-08 1451 41 3 844304 01:23.5 18 5180864 01:29.0 20 5020896 03:20.2 19 13706992 04:27.2
TCGA-34-5231-01A-21D-1817-08 743 15 4 459488 00:53.8 7 5180416 00:58.6 7 5015952 02:12.6 7 13635536 03:55.1
TCGA-37-5819-01A-01D-1632-08 839 31 2 380144 00:41.0 10 5184032 00:44.1 11 5013136 02:29.6 12 13725376 03:55.3
TCGA-39-5031-01A-01D-1441-08 754 22 3 549296 00:52.5 1 5180384 00:59.2 1 5018256 02:21.9 1 13644784 03:58.5
TCGA-46-3769-01A-01D-0983-08 1037 29 3 446448 00:41.8 13 5184032 01:04.3 13 5025968 02:26.0 13 13639456 03:49.8
TCGA-60-2698-01A-01D-1522-08 1396 34 5 1198992 02:07.6 4 5180400 02:07.2 4 5021424 03:33.8 4 13715488 04:54.1
TCGA-66-2785-01A-01D-1522-08 1338 44 3 1101216 01:56.5 4 5180848 01:54.0 4 5025424 03:33.9 4 13731600 04:53.6
TCGA-85-6561-01A-11D-1817-08 984 14 2 602112 00:44.0 3 5180400 01:31.6 3 5016176 02:26.3 3 13637520 04:09.9
  1. Num. of input SNVs: the number of somatic SNVs from TCGA data matrix
  2. Num. of BMs: the number of identified Blocks of Mutations
  3. Size of the largest BM: the maximu number of SNVs in a Block of Mutations
  4. Num. of BMCs: the number of BMCs (Block of Mutations wtihin Codon)
  5. Memory: the peak memory used during the run
  6. Run time: the eclipsed wall time for the run