Run TRUST4 on RNA-seq data
meta
Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]
[ id:'sample1', single_end:false ]
bam
BAM file from bulk or single-cell RNA-seq data
*.bam
reads
List of input FastQ files of size 1 and 2 for single-end and paired-end data, respectively
fasta
Path to the fasta file coordinate and sequence of V/D/J/C genes
ref
Path to detailed V/D/J/C gene reference file, such as from IMGT database.
tsv
tsv files created by TRUST4
*.tsv
airr_tsv
TRUST4 results in AIRR format
*_airr.tsv
report_tsv
TRUST4 report in tsv format
*_report.tsv
Fasta files created by TRUST4
*.fa
out
Further report files
*.out
fq
Fastq files created by TRUST4
*.fq
versions
File containing software versions
versions.yml
TCR and BCR assembly from bulk or single-cell RNA-seq data
