Short Tandem Repeats analysis

Question

[marina-orlova]

I need to analyze 3 nucleotides tandem repeats, which tool is best in your opinion for this goal?

I looked for this on Biostars but the last answer I managed to find was 2.5years ago. People told about lobSTR and NTRFinder. Are there any new good tools?

Answer 1

[h.mon]

What kind of data do you have? Do you have (draft) genome assemblies? Transcriptome assemblies? Anyway, here and here are posts which are somewhat recent, a lot newer than 2.5 years.

I never used lobSTR, but as far as I understand it aims at finding STR on next-generation sequencing data. Is this the kind of data you have?

[marina-orlova]

Yes, NGS data. hg19 is a reference genome

[h.mon]

So the only software I am aware is lobSTR.

[marina-orlova]

thank you for the answer!