track aligns query probe sequences to any target transcriptome
Input
name:type
description
pattern
meta
:map
Groovy Map containing information of the forward oriented fasta generated with the probes panel sequences generated with opt flip
e.g. [ id:'breast_cancer_probe_panel_sequences' ]
fwd_oriented_fa
:file
Forward oriented fasta file generated by the opt flip command
*.fa
meta2
:map
Groovy Map containing the information of the genomic features and fasta files used as references
e.g. [ id:'gencode_references' ]
ref_annot_gff
:file
Reference annotation in gff format
*.gff
ref_annot_fa
:file
Reference annotation in fasta format
*.fa
Output
name:type
description
pattern
probes2target
meta
:map
Groovy Map containing sample information
e.g. [ id:'sample1' ]
${prefix}/probe2targets.tsv
:file
Generated probe targets
*probe2targets.tsv
versions_opt
${task.process}
:string
The name of the process
opt
:string
The name of the tool
opt --version
:eval
The expression to obtain the version of the tool
Topics
name:type
description
pattern
versions
${task.process}
:string
The name of the process
opt
:string
The name of the tool
opt --version
:eval
The expression to obtain the version of the tool
Tools
opt
GPL-3.0 license
opt is a simple program that aligns probe sequences to transcript sequences to detect potential off-target probe activity
