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cpockrandt / genmap

GenMap - Fast and Exact Computation of Genome Mappability
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-d or --cvs no output #11

Closed duartemolha closed 4 years ago

duartemolha commented 4 years ago

Hi

I was very happy to find a option to give me all the genomic locations is the Kmers

I basicaly wanted to use it to find all the genomic locations of 50 bp kmers on a specific region of the genome

so I used this command:

genmap map -K 50 -E 5 -I my index -O my_orf_map --selection myBed.bed -d However I did not get any output myBed: chrX 38284365 38288084 ORF15

Am I missing something?

Thanks

Duate

cpockrandt commented 4 years ago

Is it maybe related to #12?

GenMap expects the identifiers to match exactly at the moment. It's already on my todo-list and I will push a commit hopefully by the end of the week!

duartemolha commented 4 years ago

AH ... thanks