Edwin Solares

icon indicating a website link http://edwinsolares.com icon indicating an email [email protected]

icon company University of California, San DIego icon location San Diego, CA icon location I am currently conducting research and teaching at UCSD where I focus on developing AI and Bioinformatics tools to help combat food insecurity and disease.

Results 11 comments of Edwin Solares

make clean required for 0.2

Thank you for your suggestion. I will look into adding this into the make merger script. Thank you, Edwin On Thu, Dec 13, 2018, 5:53 PM Joseph Fass After struggling...

terminate called after throwing an instance of 'std::out_of_range' what(): basic_string::substr: __pos (which is 1047464) > this->size() (which is 0) Aborted

Again, we do not recommend using scaffolded assemblies on quickmerge. With respect to n50's of contig assemblies. I have run quickmerge on 13Mb N50's and I believe Mahul has run...

Quickmerge fails to set its PATH internally

I'll look into it later today. On Mon, May 9, 2022, 11:12 AM Mahul Chakraborty ***@***.***> wrote: > @jgbaldwinbrown > > @esolares > > can we fix this? > >...

Quickmerge fails to set its PATH internally

Hi, Thank you for bringing this to our attention. I have taken a look and this is actually not a quickmerge issue, but instead an issue with MUMmer. Some applications...

terminate called after throwing an instance of std invalid argument

Hi Thank you for your email. I noticed in your command line that the reference was missing a forward slash. Could you try adding the missing forward slash and let...

terminate called after throwing an instance of std invalid argument

Hi, I also just noticed that you are passing -ml a value of m. Could you please also check this? This should be an integer value. Please let us know...

Where have all the buscos gone?

Hi Thank you for your email. Have you tried switching the query and reference? Also, did you try one round or two rounds of merging? Thank you, Edwin On Tue,...

Where have all the buscos gone?

Hi, My apologies for the late reply. We have a colleague from the NIH that tested the merging of a 10x assembly and a pacbio assembly. The result of this...

Where have all the buscos gone?

My ideas for combining both 10x and pacbio, would be to first take the 10x assembly and convert to contig form (i.e. removing the N's). then performing quickmerge on this....

BUG for int type range

Hi Are you using the 64bit version of mummer that was compiled with quickmerge? Also can you please copy and paste the command that gave you this exception? Thank you,...