Difference between revisions of "ComputeTranscriptProfile (analysis)"
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==== Description ==== | ==== Description ==== | ||
| − | Compute footprint profile for transcripts | + | Compute footprint profile for transcripts. |
==== Parameters: ==== | ==== Parameters: ==== | ||
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[[Category:Analyses]] | [[Category:Analyses]] | ||
| − | [[Category: | + | [[Category:Ribosome profiling (analyses group)]] |
[[Category:ISB analyses]] | [[Category:ISB analyses]] | ||
[[Category:Autogenerated pages]] | [[Category:Autogenerated pages]] | ||
Latest revision as of 18:15, 9 December 2020
- Analysis title
ComputeTranscriptProfile
- Provider
- Institute of Systems Biology
- Class
ComputeTranscriptProfile- Plugin
- biouml.plugins.riboseq (RiboSeq Experiment)
[edit] Description
Compute footprint profile for transcripts.
[edit] Parameters:
- BAM files – BAM files with genomic alignments
- Transcript set – Transcript set
- Annotation source – Source of gene annotation
- Transcripts annotation track – Track with transcripts annotation in BED format
- Genome sequence – Collection of chromosomal sequences
- Ensembl – Ensembl database version
- Transcript subset – Subset of transcripts used in this analysis
- GTF file – GTF file
- Transcript overhangs – Transcript overhangs
- Strand specific – In strand specific protocol reads can come only from positive strand of transcript
- Ribosome A-site offset table – Table with 2 columns: 'Length' and 'Offset'
- Min transcript footprints – Minimal number of footprints in transcript
- Processed transcript – Compute profile for processed transcript (without introns)
- Output track – Resulting track with transcript profiles
