Tag: pipeline
ENCODE Hi-C Processing Pipeline
Executes the ENCODE Hi-C pipeline using Nextflow to transform FASTQ files into multi-resolution contact matrices and loop calls. The pipeline supports local, SLURM, and cloud-based deployments via Docker.
ENCODE Pipeline Workflow Generation and Management
This skill facilitates the generation and execution of complex ENCODE bioinformatics workflows, supporting custom Nextflow and WDL pipelines. It manages compute resource requirements and deployment across local, HPC, and major cloud platfor…
Pipeline Operational Context Loader
This skill loads comprehensive operational context, including architectural rules, model selection guidelines, and critical constraints for complex data pipelines involving OCR, translation, and Lambda workers. It ensures developers are awa…
Multi-step workflow orchestration with approvals
Lobster orchestrates deterministic, multi-step pipelines, allowing complex workflows involving multiple tool calls. It supports mandatory human approval checkpoints, enabling reliable, resumable automation for tasks like email triage or mon…