Difference between revisions of "MicroRNA aligner (analysis)"
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;Analysis title | ;Analysis title | ||
| − | :MicroRNA aligner | + | :[[File:Default-analysis-icon.png]] MicroRNA aligner |
;Provider | ;Provider | ||
:[[Institute of Systems Biology]] | :[[Institute of Systems Biology]] | ||
| + | ;Class | ||
| + | :{{Class|ru.biosoft.bsastats.MicroRNAAligner}} | ||
| + | ;Plugin | ||
| + | :[[Ru.biosoft.bsastats (plugin)|ru.biosoft.bsastats (Bio-sequences analyses plugin extension)]] | ||
==== Description ==== | ==== Description ==== | ||
| − | Aligns NGS reads to microRNA | + | Aligns NGS reads to microRNA. |
==== Parameters: ==== | ==== 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 | * '''miRNASequences''' – miRNASequences | ||
* '''adapter''' – adapter | * '''adapter''' – adapter | ||
| + | * '''matchScore''' – matchScore | ||
* '''mismatchPenalty''' – mismatchPenalty | * '''mismatchPenalty''' – mismatchPenalty | ||
* '''gapPenalty''' – gapPenalty | * '''gapPenalty''' – gapPenalty | ||
* '''alignmentScoreThreshold''' – alignmentScoreThreshold | * '''alignmentScoreThreshold''' – alignmentScoreThreshold | ||
* '''threadCount''' – threadCount | * '''threadCount''' – threadCount | ||
| − | * ''' | + | * '''autoGeneratedQueryNames''' – autoGeneratedQueryNames |
| + | * '''unmapped''' – unmapped | ||
| + | * '''results''' – results | ||
[[Category:Analyses]] | [[Category:Analyses]] | ||
| − | [[Category: | + | [[Category:MicroRNA (analyses group)]] |
| + | [[Category:ISB analyses]] | ||
[[Category:Autogenerated pages]] | [[Category:Autogenerated pages]] | ||
Latest revision as of 18:15, 9 December 2020
- Analysis title
MicroRNA aligner
- Provider
- Institute of Systems Biology
- Class
MicroRNAAligner- Plugin
- ru.biosoft.bsastats (Bio-sequences analyses plugin extension)
[edit] Description
Aligns NGS reads to microRNA.
[edit] 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
