Description

Transcript Selector for BRAKER TSEBRA combines gene predictions by selecing transcripts based on their extrisic evidence support

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:'sample1' ]

gtfs (list)

List of gene prediction files in gtf

*.gtf

hints_files (list)

List of files containing extrinsic evidence in gff

*.gff

keep_gtfs (list)

List of gene prediction files in gtf. These gene sets are used the same way as other inputs, but TSEBRA ensures that all
transcripts from these gene sets are included in the output

*.gtf

config (file)

Configuration file that sets the parameter for TSEBRA

*.cfg

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:'sample1' ]

versions (file)

File containing software versions

versions.yml

tsebra_gtf (file)

Output file for the combined gene predictions in gtf

*.gtf

tsebra_scores (file)

Transcript scores as a table

*.tsv
maintainer
Github user GallVp
get in touch
Ask a question on Slack Open an issue on GitHub

Tools

tsebra
Artistic-2.0

TSEBRA is a combiner tool that selects transcripts from gene predictions based on the support by extrisic evidence in form of introns and start/stop codons

github.com/Gaius-Augustus/TSEBRA 10.1186/s12859-021-04482-0