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Table 2 Resources needed by the programs run with 4 threads

From: ChimPipe: accurate detection of fusion genes and transcription-induced chimeras from RNA-seq data

Program

Maximum RAM used (in Gb)

Cumulative wallclock time (in hours)

Number of commands to execute

ChimPipe

34.5

10.1

1

FusionMap

11.7

0.4

1

PRADA

35.5

4.5

3 (make mapping script, mapping, compute fusion)

Chimerascan

4.8

8.2

1

TophatFusion

62.2

18a

2 (mapping, filtering)

  1. This table indicates the computing resources needed by each program to process the PE76 simulated data, as well as the number of commands needed to produce the final result
  2. a9 h for mapping and 9 h for filtering (27.5 h for the 3 simulated sets (50bp, 76bp and 101bp) at the same time)
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BMC Genomics

ISSN: 1471-2164

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