Pipelines

Methods and information about the community-validated, open source pipelines available to run in Pluto

• What is a pipeline?
• RNA-seq pipeline parameters
• CUT&RUN pipeline parameters
• Standard ChIP-seq parameters in Pluto
• Standard PRO-seq parameters in Pluto
• Merging lanes in NGS pipelines
• Concatenating FASTQ files
• Broad vs narrow peak mode for peak calling in epigenomics experiments