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stjude / CICERO

CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.
https://stjude.github.io/CICERO
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remove " [-rg refflat]" in RNApeg command #23

Closed liqingti closed 4 years ago

adthrasher commented 4 years ago

@liqingti - Please make any additional non-hg38 related README changes here. I know you mentioned adding parameter definitions and FusionEditor. I've added some information including the location of the final fusion file and correcting arguments for running RNApeg.

adthrasher commented 4 years ago

@liqingti - Also please add junctions examples to https://www.stjuderesearch.org/site/lab/zhang/cicero as junctions is now marked as a required parameter.

liqingti commented 4 years ago

Hi Andrew,

After discussing with Jinghui yesterday, she wants to put [-j junctions] as optional. We just need to add details for the parameters, so users know when to use it.

Thanks, Liqing

On Wed, Jul 8, 2020 at 9:41 AM Andrew Thrasher notifications@github.com wrote:

@liqingti https://github.com/liqingti - Also please add junctions examples to https://www.stjuderesearch.org/site/lab/zhang/cicero as junctions is now marked as a required parameter.

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