joshsbloom/swabseqr
Analysis Pipeline for Swabseq Covid Testing

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joshsbloom/swabseqr: Analysis Pipeline for Swabseq Covid Testing
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Man pages for joshsbloom/swabseqr
Analysis Pipeline for Swabseq Covid Testing

addIdentifiersGiven Demuxed data, add in sample barcode information
autoRunAuto Run the Pipeline
bcl2fastqRunsRun BCl2FASTQ
buildEnvironmentBuild SwabSeq environment variable
demuxRunsRun BCl2FASTQ
downloadRunsDownload runs from basespace
getRunTableStatusRead config.yaml and convert to table
lookUpKeysLookup experiments and flowcells and merge with basespace...
pipePipe operator
setAnalysisVariablesSet Analysis Variables
syncReportsSync Reports to shared drive
syncRunsSync config.yaml file
joshsbloom/swabseqr documentation built on Feb. 11, 2022, 5:14 p.m.

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