Remove polyA tail and artificial concatemers
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test ]
bam{:bash}
:file
BAM file, cleaned ccs generated by lima
*.bam
primers{:bash}
fasta file of primers
*.fasta
Groovy Map containing sample information e.g. [ id:‘test’ ]
*.bam{:bash}
Set of complete reads (with polyA tail), where the polyA has been trimmed
pbi{:bash}
*.bam.pbi{:bash}
Pacbio index file from polyA trimmed reads
*.pbi
consensusreadset{:bash}
*.consensusreadset.xml{:bash}
Metadata about read library
*.xml
summary{:bash}
*.filter_summary.report.json{:bash}
json file describing number of full length reads, full length non chimeric reads and full length non chimeric polyA reads
*.json
report{:bash}
*.report.csv{:bash}
Metadata about primer and polyA detection (primers/polyA/insert length, strand, primer name)
*.csv
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
IsoSeq - Scalable De Novo Isoform Discovery
