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Consider homopolymer compressed kmers #7

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tseemann opened this issue Apr 5, 2018 · 4 comments

Contributor

tseemann commented Apr 5, 2018

Heng uses homo-compressed k-mers in minimap2
Might be useful here
Or not

Contributor Author

tseemann commented Apr 6, 2018

Can transform the data with $dna =~ s/(.)\1*/\1/g :)

Contributor Author

tseemann commented Apr 7, 2018

In case you need it:

https://github.com/tseemann/dehomopolymerate

dehomopolymerate -l 15 < in.fq.gz > out.fq

Owner

andrewjpage commented Apr 9, 2018

Thanks a million!

Owner

andrewjpage commented Sep 5, 2018

Added as an option

andrewjpage closed this as completed

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