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vgl-hub / gfastats

A single fast and exhaustive tool for summary statistics and simultaneous *fa* (fasta, fastq, gfa [.gz]) genome assembly file manipulation.
MIT License
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gap length #49

Closed ksc289 closed 1 week ago

ksc289 commented 1 month ago

Good morning, I have used gfastats to analyze some metrics of a de novo genome assembly, it has been very useful! But I have a question about gaps, from what length of N does gfastats consider there to be a gap?

Thank you very much, Karen :)

gf777 commented 1 month ago

Hi Karen! @ksc289 Glad to hear it. Even just a 1 bp N will be considered a gap, ie. contigs can only be made of ACGT bases All the best Giulio

ksc289 commented 1 month ago

Hi Giulio, thank you very much for the reply!

Karen