I came across your software mentioned in a pre-print on assembly a plant genome. I was wondering if miniasm could be used to get a rough assemble of large (1 Gb+) genome with short reads.
I was able to run minimap:
./minimap -Sw5 -L100 -m0 -t8 orc13-A2_R1.fastq.gz orc13-A2_R2.fastq.gz | gzip -1 > reads.paf.gz
to generate the paf.gz.
But I am not sure on what might be good starting values for the parameters in miniasm. I've tried a few different permutations and always end up with an out file that is 0 kb.
Hello,
I came across your software mentioned in a pre-print on assembly a plant genome. I was wondering if miniasm could be used to get a rough assemble of large (1 Gb+) genome with short reads.
I was able to run minimap: ./minimap -Sw5 -L100 -m0 -t8 orc13-A2_R1.fastq.gz orc13-A2_R2.fastq.gz | gzip -1 > reads.paf.gz to generate the paf.gz.
But I am not sure on what might be good starting values for the parameters in miniasm. I've tried a few different permutations and always end up with an out file that is 0 kb.
Thanks for any input or help. ara