Man pages for nixstix/RNASeqAnalysis
Analysis of RNA-Seq data: QC filtering, expression analysis, differential expression pipeline

addKallistoResToTableAdds the output kallisto directory to the original datafile.
availableReferencesA number of transcriptome indices have already been built,...
checkDataFileChecks that the format of the "data file" (which is used as...
collectKallistoCountsCollects raw counts of gene (or transcript) data generated by...
collectKallistoCountsTXItoGeneCollects raw counts of genes, based on transcript data...
compareQACompares quality before and after filtering fastq files....
datafileTemplate(Empty) template data file which summarises the data to be...
filterBadSeqsPerforms quality checks, then filters reads for quality
kallistoIndexBuilds a transcriptome index (.idx) from a FASTA-formatted...
kallistoQuantKallisto quantifies transcript abundance from RNA-Seq data.
runQAPerforms quality checks
summariseFilteringStatsCollects summary statistics on filtering This function...
nixstix/RNASeqAnalysis documentation built on May 23, 2017, 3:41 p.m.