CPL-Code: a corpus annotated with bioinformatics tool names in executable code of Nextflow workflows

CPL-Code is a corpus describing bioinformatics tool names in executable code of Nextflow workflows. These annotations are available in the BRAT Rapid Annotation Tool (BRAT) standoff format (https://brat.nlplab.org/standoff.html). This corpus is composed of 1,368 processes related to Nextflow workflows randomly selected from GitHub with a total of 137,337 tokens and 3,401 annotated tokens corresponding to 3,398 tool occurrences (537 unique tools). Repository organisation The articles are separated into seven different directories: Five folders (iteration_{i}) are provided, each corresponding to a different split of the training data. This allows experiments to be run on different splits. An another folder contains the 991 processes used for training. The last folder contains 377 processes used for testing. Contact Clémence Sebe, clemence.sebe@universite-paris-saclay.fr Funding This work received support from the National Research Agency under the France 2030 program, with reference to ANR-22-PESN-0007.