Skip to content

How to use outrigger index with "-c"? #94

Description

@QijinYin

Hi, I'm going to use outrigger to analysis the GTEx data.

I got the junction read counts file from https://gtexportal.org/home/datasets#filesetFilesDiv13, named "GTEx_Analysis_2017-06-05_v8_STARv2.5.3a_junctions.gct.gz".

Since I have read counts file, I use

outrigger -index -c XX.gct GTEx_Analysis_2017-06-05_v8_STARv2.5.3a_junctions.gct.gz -g XXX

but get the error "KeyError: 'junction_id'"

Is there any demo using junctions read counts as input? or what's the format of the read counts file that outrigger can process?

Thanks a lot!

Metadata

Metadata

Assignees

No one assigned

    Labels

    No labels
    No labels

    Type

    No type

    Fields

    No fields configured for issues without a type.

    Projects

    No projects

    Milestone

    No milestone

    Relationships

    None yet

    Development

    No branches or pull requests

    Issue actions