MicroRNA aligner (analysis)

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Analysis title
Default-analysis-icon.png MicroRNA aligner
Provider
Institute of Systems Biology
Class
MicroRNAAligner
Plugin
ru.biosoft.bsa (Bio-sequences analyses plugin)

Description

Aligns NGS reads to microRNA

Parameters:

  • 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
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