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Table 1 Comparison of the time of execution for the paired end reads (SRR1027730) using TopHat and PVT pipeline in the host and remote machines respectively

From: PVT: An Efficient Computational Procedure to Speed up Next-generation Sequence Analysis

Steps TopHat PVT
  Execution Time (mins) Execution time (mins) in Host machine Execution time (mins) in Remote machine Time (mins) considered for PVT of paired end reads
Filter_reads 22 21 - 21
Transfer to remote Not applicable 5 92*
Building Bowtie indices 6 6
Gene_align 83 42(L) 37(R)
Genome_align 94 39(L) 41(R)
Transfer from remote Not applicable 3
Find_juncs 12 9 - 9
Transfer to remote Not applicable Negligible (~22 s) 5*
Junc_align 17 2(L) 2(R)
Span_reads 10 3(L) 3(R)
Transfer from remote Not applicable ~24 s
Report 40 41(L + R) - 41
Net execution time 284 168
  1. (L) and (R) denotes the execution time for left and right kept reads respectively.
  2. *Time calculated using equation (1).