Skip to content

--length-max ignored or toned down? #15

@FiniDG

Description

@FiniDG

I have a question, because I ran the command:
pbsim --data-type CLR --depth 40 --length-min 500 --length-mean 12000 --length-max 40000 --accuracy-min 0.85 --accuracy-mean 0.87 --model_qc /PBSIM-PacBio-Simulator/data/model_qc_clr /path/to/ref.fasta --prefix /path/to/output/
and
pbsim --data-type CLR --depth 40 --length-min 500 --length-mean 12000 --length-max 70000 --accuracy-min 0.85 --accuracy-mean 0.87 --model_qc /PBSIM-PacBio-Simulator/data/model_qc_clr /path/to/ref.fasta --prefix /path/to/output/

And still (whatever I fill in as --length-max), My largest read is around 26000

What is the reason for this? the ref.fasta I used is only 14 Mb in size, so might that be a reason? Or does PBSIM wants to make a specific read length distribution?

Metadata

Metadata

Assignees

No one assigned

    Labels

    No labels
    No labels

    Projects

    No projects

    Milestone

    No milestone

    Relationships

    None yet

    Development

    No branches or pull requests

    Issue actions