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0xTCG / biser

A fast tool for detecting and decomposing segmental duplications in genome assemblies
MIT License
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need a positive control for BISER #37

Closed svedwards closed 8 months ago

svedwards commented 9 months ago

Hello -

I have been running biser (successfully only with the --gc-heap option), but on two different genomes it has not found any SDs. Even when I ran it on the human T2T masked genome (GCF_009914755.1) it found no SDs using default settings. Can you direct me to an assembly and a command line that is guaranteed to find some SDs? It would be helpful too if you could post what the results should look like. Thank you.

inumanag commented 8 months ago

Hi @svedwards

You can try hg19 from here: https://hgdownload.cse.ucsc.edu/goldenpath/hg19/bigZips/hg19.fa.gz