Juan Montenegro Cabrera comments

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                                            Juan Montenegro Cabrera

Using AF-Multimer with custom MSA

Hello eveyone, I am curious if it is possible to produce a heterodimer a3m file starting with individual monomeric a3m files?

cannot download bed files for dm6 genome

Hi Shinya, Thank you for your message. I have tried accessing these url: I am not entirely sure what SRX these were. I went to the Peak-browser and selected the...

cannot download bed files for dm6 genome

Hi Shinya, Thank you for your reply. On a related note, I downloaded the dm3 atacseq data and did the basic analysis of peak distribution along the dm3 genome (biocoductor)....

GFF does not contain any gene features. Use -f to provide a list of other feature types to lift over.

Interestingly, "-infer_genes" is order dependent and it has to appear in the command line before any "mm2_options" are added.

Salmon failure

Hello all, Has this issue been resolved? I am running into a similar error. Apparently Salmon is unable to map the reads back to the assemblies and therefore gets a...

taking longer and using more memory than expected

Dear Greg, Thank you for your email. I am currently using magicblast 1.5.0. This is a allotetraploid plant of 1.3 Gbp genome. It is not as repetitive as other plant...