The workflow editor generates a file that contains the complete workflow and will be read by the workflow management system.
To draw parallels between purely manual and semi-automatic curation, we split the original data set into two equal parts and prepared a total of three workflows: Manual annotation : This workflow reads PubMed abstracts and opens a Manual Annotation Editor for a curator to tag the entities of interest without any support from automatic processing available in Argo.
Themes raised as barriers for current POCT included complexity, long time frames of the so-called "rapid" test, multiple time-driven steps, requiring laboratory technician, difficulty in reading result, interruption of workflow, unreliability, and invasiveness.
Manual correction : This workflow reads XMI files that already contain annotations (coming from the second automatic workflow) and opens a Manual Annotation Editor for a curator to correct (remove, add, modify) the automatically recognized annotations.
Automatic annotation : Purely automated and not involving any manual intervention from the curators, this workflow reads PubMed abstracts and performs recognition and normalization of the entities of interest.
In brief, we performed ab initio and structural search based on putative precursors sequences constructed from our sequenced reads, following the workflow depicted in Fig. 1.
In the WG-FAST pipeline workflow, reads are initially mapped to a reference genome assembly with BWA-MEM and SNPs are called with the UnifiedGenotyper method in GATK.
Manual annotation: This workflow reads PubMed abstracts and opens a Manual Annotation Editor for a curator to tag the entities of interest without any support from automatic processing available in Argo.
The workflow starts by reading in the data, followed by background correction and quantile normalization.
In principle, there are two general modes of evaluation of images including different workflows: one is reading images with medico-legal responsibility, e.g. primary read or secondary read for an addendum or supplementary report; the other one is reviewing for comparison while follow-up studies or reviewing by other physicians.
