Marcela Uliano-Silva

Hey Remio, Thanks for your answer! I have add mitofinder here https://github.com/marcelauliano/MitoHiFi If you are ok with the licenses on each script, its ok with me. Otherwise, maybe repeating the...

Dear Mahesh, nothing has been changed in findMitoReference.py it the latests releases. If something is changed, it will be written in the version release. ``` findMitoReference.py --species "Laetiporus sulphureus" --min_length...

Hi Madhu, It seems to me an error with samtools. Do you know which version you are using? I advise to install singularity and pull the docker container if you...

Hi Madu, -o is not the output, its the mitochondrial genetics code. In the example case, its is -o 5

Hi Rifa, Seems like you don't have enough reads for hifiasm. 1-) Can you generate the statistics of your filtered reads? 2-) Can you do the same for the unfiltered?...

Contigs that are more than 5x larger will be a numt. I think your problem is your sequenced sample, not the tool =) You can try using the filtered reads...

Ah! Try editing your reads ids not to have any | or / or \ On Fri, 12 Aug 2022 at 13:11, Athena Syarifa ***@***.***> wrote: > Ah I see,...

Have a ding on the outputs. My guess is that you don’t have tRNA-Phe. So you probably only have a partial mito! 🤔 On Fri, 12 Aug 2022 at 14:56,...

Hi Athena! Your problem now is not the pipeline anymore. It’s possible you don’t have mitoreads in your sample. You need to investigate the intermediate files such as the filtered...

Athena, did you input your reads and -r ? This is what you should do. From your intermediate files it seems to me you input them as -c On Wed,...