Fazel-Vahedi

icon indicating a website link https://www.uni-goettingen.de/en/679310.html

icon company University Goettingen icon location Goettingen, Germany icon location MSc student at the Max Planck Institute for Multidisciplinary Sciences (MPI-NAT), focusing on bioinformatics and computational biology.

Results 7 comments of Fazel-Vahedi

Passing large numbers of files to createsetdb

Hi! Did you reach a solution for your issue with the large number of files?

Passing large numbers of files to createsetdb

Hi Spencer, Thank you for the helpful tips. I checked the command size limit in my linux system by `ulimit -a` and it turned out to be `stack size (kbytes,...

MASH distance for AA

Hi! I was wondering if you came up with an answer to your question.

Using prodigal-gv results as input to pharokka

Hi George, thank you for your reply. This is the command I am using to run the `pharokka_proteins.py` for one of my protein files: `pharokka_proteins.py -i PATH_TO_INPUT/1_ORFs.faa -o PATH_TO_OUTPUT/annotated_genomes_pharokka -d...

Using prodigal-gv results as input to pharokka

Hi George, Thank you for the reply. Now I was wondering if you could give a hint on how to generate `gbk` files using protein input. I need these files...

sciplex3 count matrix gene indices

Hi @yyou1996, I have the same issue with sciplex3. Could you please let me know if you found the answer to your question? Best, Fazel

sciplex3 count matrix gene indices

Hi @yyou1996, Thanks for your response. Do you mean this paper? `Causal identification of single-cell experimental perturbation effects with CINEMA-OT` Because when I checked it, I realised they have used...