Harald Gruber-Vodicka
Harald Gruber-Vodicka
Hi Magda, I think you are confusing reads and assembly output. The header you are showing is the header for one of the assembled sequences generated by spades. These assemblies...
Hi, the tool calls are case sensitive. Could you please check that you can access fastaFromBed from the environment you are running phyloFlash in. Simply type it in at the...
I think you are correct, with your high number of input reads the number of reads recruited at 70% ID is too high for emirge to handle. With 90% you...
Hi, it looks like emirge crashed sometime on its way and did not get to generate the final iteration. you can get phyloFlash to finish the pipeline without emirge using...
Hi guys The thing with barrnap_HGV is that I added a -gene switch and split the gene databases into SSU and LSU so we can only search a single gene...
Sidenote: The read mapping patterns look weird, no pairs map on the same reference. Are these normal shotgun metagenomic reads? Looks like spades can't assemble anything, so you might also...