Description

tidk explore attempts to find the simple telomeric repeat unit in the genome provided. It will report this repeat in its canonical form (e.g. TTAGG -> AACCT).

Input

name:type
description
pattern

meta{:bash}

:map

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

fasta{:bash}

:file

The input fasta file

*.{fsa,fa,fasta}

Output

name:type
description
pattern

explore_tsv{:bash}

meta{:bash}

:map

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

*.tidk.explore.tsv{:bash}

:file

Telomeres and their frequencies in TSV format

*.tidk.explore.tsv

top_sequence{:bash}

meta{:bash}

:map

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

*.top.sequence.txt{:bash}

:file

The most frequent telomere sequence if one or more sequences are identified by the toolkit

*.top.sequence.txt

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

tidk
MIT

tidk is a toolkit to identify and visualise telomeric repeats in genomes

github.com/tolkit/telomeric-identifier 10.5281/zenodo.10091385
included in
genomeqc
maintainer
Github user GallVp
get in touch
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