Closed yifei-men closed 7 years ago
Improvements to the demux-plus (demux + metagenomics) pipeline and resource building process.
Specifically, this PR addresses the following:
samtools idxstats
20160705
Additionally, README updates to reflect appropriate changes in resource building protocol.
Improvements to the demux-plus (demux + metagenomics) pipeline and resource building process.
Specifically, this PR addresses the following:
21: Exposes --minimum_base_qualiyty and --max_mismatches as parameters in Demux applet
25: Create fastqc and hit count reports, the latter from BWA-mem alignment +
samtools idxstatson default spike-in reference genome file.26: Allow Novoalign license to be provided as a parameter, remove dependency on Novocraft tarball
27: Use the --commonBarcodes option on Demux to generate count of common barcodes
29: Updated kraken database to
20160705versionAdditionally, README updates to reflect appropriate changes in resource building protocol.