ChIP-seq Multiqc Report: Samtools Flagstat and Fastq Screen Error

CCBR / Pipeliner

An open-source and scalable solution to NGS analysis powered by the NIH's Biowulf cluster.

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ChIP-seq Multiqc Report: Samtools Flagstat and Fastq Screen Error #337

Closed skchronicles closed 6 years ago

skchronicles commented 6 years ago

Multiqc Module Errors

Samtools Flagstat Module:

Not all samples are being shown

Fastq Screen Module:

Fastq Screen is incorrectly showing bacteria contamination

skchronicles commented 6 years ago

Updated the multiqc rule in InitialChIPseqQC.snakefile and standard-bin.json Also added a multiqc config file for the ChIP-seq pipeline to fix the fastq screen problem: /data/CCBR_Pipeliner/db/PipeDB/ChIPseq/multiqc_config.yaml