MicroRNA aligner (analysis)

Aligns NGS reads to microRNA.

Source – Whether to get input data from track or from FASTQ
Input track – Track to process
FASTQ file – FASTQ file with reads to analyze
Quality encoding – This specifies how phred quality values are encoded in the FASTQ file. In most of the cases system detects this value automatically. You may change it manually if auto-detection worked incorrectly.
CSFasta file – File containing reads in color space
Qual file – File containing corresponding quality values
miRNASequences – miRNASequences
adapter – adapter
matchScore – matchScore
mismatchPenalty – mismatchPenalty
gapPenalty – gapPenalty
alignmentScoreThreshold – alignmentScoreThreshold
threadCount – threadCount
autoGeneratedQueryNames – autoGeneratedQueryNames
unmapped – unmapped
results – results