index creation for kb count quantification of single-cell data.
meta
:map
Groovy Map containing reference information e.g. [ id:‘genome’ ]
fasta
:file
Genomic DNA fasta file
*.{fasta,fasta.gz}
meta2
gtf
Genomic gtf file
*.{gtf,gtf.gz}
workflow_mode
:string
String value defining workflow to use, can be one of “standard”, “nac”, “lamanno” (obsolete)
{standard,lamanno,nac}
index
Groovy Map containing reference information
kb_ref_out.idx
kb ref index file
*kb_ref_out.idx
t2g
t2g.txt
Transcript to gene table
*t2g.{txt}
cdna
cdna.fa
cDNA fasta file
*cdna.{fa}
intron
intron.fa
Intron fasta file
*intron.{fa}
cdna_t2c
cdna_t2c.txt
cDNA transcript to capture file
*cdna_t2c.{txt}
intron_t2c
intron_t2c.txt
Intron transcript to capture file
*intron_t2c.{txt}
versions_kallistobustools
${task.process}
The name of the process
kallistobustools
The name of the tool
kb --version 2>&1 | sed -n 's/kb_python //p'
:eval
The expression to obtain the version of the tool
versions
kallisto|bustools (kb) is a tool developed for fast and efficient processing of single-cell OMICS data.
