Question

Regarding genome indexing by STAR

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6.5 years ago

amitunited0532 ▴ 40

How much time taken in Genome index generate if I have 8GB RAM ? what is exact command to generate genome index?

alignment RNA-Seq sequencing assembly • 1.9k views

ADD COMMENT • link 6.5 years ago by amitunited0532 ▴ 40

score 0 · Answer 1 · 2018-05-25

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6.5 years ago

GenoMax 147k

What is genome size? STAR requires 30+G RAM with human sized genomes.

Basic genome index generation command is shown in Section 2.1 of STAR manual.

ADD COMMENT • link 6.5 years ago by GenoMax 147k

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Genome size is 4.5 GB. How much time take if have 8GB RAM?

ADD REPLY • link 6.5 years ago by amitunited0532 ▴ 40

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Hard to estimate time since it would depend on hardware you have but should take around an hour or so.

ADD REPLY • link 6.5 years ago by GenoMax 147k

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Is necessary to mention number of processors or threads in command ??

ADD REPLY • link 6.5 years ago by amitunited0532 ▴ 40