Description

Transcript Selector for BRAKER TSEBRA combines gene predictions by selecting 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

tsebra_gtf

meta:map

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

*.gtf:file

Output file for the combined gene predictions in gtf

*.gtf

tsebra_scores

meta:map

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

*.tsv:file

Transcript scores as a table

*.tsv

versions

versions.yml:file

File containing software versions

versions.yml

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
Github user GallVp
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