gmarcais

That should be fixed in the develop branch. Can you give it a try?

On Tue, Apr 29, 2014 at 6:29 AM, Ben J Woodcroft [email protected]: > I can count on one hand bioinformatics programs I actually like, and with > these new arbitrary...

Hi colin, Jellyfish does have a library that you can use independently of the executable itself. It comes with a lot more things than just the hash though, but it...

I unfortunately do not have access such hardware. There is a project to optimize for ARM+NEON using the ARM machine available on AWS. Hopefully that will also fix the problem...

The input must be either in fasta or fastq format. You could define a shell function like the following (put it in your .bashrc for example): ```shell function jfc() {...

This is not supported by default. Can I ask how you would see something like this work? You would pass a step size and, maybe, an offset. For each sequence...

It seems interesting. I'll try to implement it. How would an N be handled? Like it is the start of a new sequence?

I'll admit that I have not used or looked at the q-mer feature in a long time. Would you mind sharing a small subset of the data that exhibits the...

You are using the `-U` switch for dump, which does not output k-mers with a count above 10. Is that what you are missing?

Quake uses version 1 of Jellyfish. The -q switch of count and qmerge subcommand do not exist in version 2.