Hi, the --skip_all_clones_report argument is a boo...
# airrflow
j
Hi, the --skip_all_clones_report argument is a boolean, but is it TRUE or FALSE by default? If I run my pipeline like this:
nextflow run nf-core/airrflow -r 4.3.0 \
-profile clontech_umi_bcr,singularity \
--input /faststorage/Heavy_chain.tsv \
-c /faststorage/resources.config \
--outdir /faststorage/AIRRFLOW_results \
-resume
Is the DefineClones report included? Extra regarding DefineClones / Changeo: I read this article: https://www.frontiersin.org/journals/immunology/articles/10.3389/fimmu.2022.814239/full that for figure 2E they used Changeo. Is the output from Changeo included in the nf-core/airrflow result if --skip_all_clones_report is set to FALSE?