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To allow binlorry to easily bin_by sample name, we need a column with that information, in addition to the barcode information already provided.
This only comes into play when you want to run multiple analyses at a time as currently the binlorry call uses the --filter_by flag and we sub in barcode and sample names at that point.
The text was updated successfully, but these errors were encountered:
This information can (should) be provided by triggerPostProcessing to any downstream analysis tool such as binlorry. But it can't be stored in the annotation csv as RAMPART allows you to dynamically change the barcode - sample mapping via the UI (click the "config" icon).
jameshadfield
changed the title
Annotations csv to include sample_name column
Post processing scripts should have access to sample name - barcode maps
Jan 13, 2020
As of 1.1.0 this info is passed to binlorry via the snakemake config args sample_name=Kikwit barcodes=NB03 samples="{Kikwit: [NB03]}". Note that the UI can currently can only trigger them one sample at a time. Leaving this open as it needs documentation.
jameshadfield
changed the title
Post processing scripts should have access to sample name - barcode maps
Improve documentation of config args to post processing scripts
Apr 1, 2020
To allow binlorry to easily
bin_by
sample name, we need a column with that information, in addition to the barcode information already provided.This only comes into play when you want to run multiple analyses at a time as currently the binlorry call uses the
--filter_by
flag and we sub in barcode and sample names at that point.The text was updated successfully, but these errors were encountered: