A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

Is haplotypecaller removed from germline analysis now? <https://nf-co.re/sarek/3.8.1/results/sarek/results-4bd2948f98c5bf7b785c91cf6708fffccab25467/test_full_germline_aws/variant_calling/>

I might need to code my idea earlier than planned

I will use 3.8.0 results, haplotypecaller is there :smile: so no urgency for me.

wf hasn't finished successfully, so no results published yet: <https://cloud.seqera.io/orgs/nf-core/workspaces/AWSmegatests/watch/4uRzURTOJRaUdJ/v2/tasks>

<@U03EY2LC5V3> this workflow here has finishes successfull on the NCBench data and haplotypecaller results are there: <https://nf-co.re/sarek/3.8.1/results/sarek/results-4bd2948f98c5bf7b785c91cf6708fffccab25467/test_full_germline_ncbench_agilent/>

full_germline completed as well: <https://cloud.seqera.io/orgs/nf-core/workspaces/AWSmegatests/watch/4uhtxVmmO0e3DC/v2/tasks>