Cong Liu

FastTree failed

1

Hello, I am trying to run orthofinder. Here is my command: `orthofinder.py -f . -t 64 -M msa -A mafft -T fasttree` and here is the output: ``` OrthoFinder version...

EDTA crahed after no SINE found

5

Hello, I am using EDTA v2.2.0 to process my insect genomes. The commands looks like this: `EDTA.pl --genome ${genome.fa} --species others --step all --overwrite 0 --sensitive 1 --anno 1 --threads...

universal.tblout not found

6

Hi! I am trying to binning by SprayNPray, and my command is `spray-and-pray.py -g /flash/HusnikU/Cong/assembly/ACAB_assembly.fna -bam /flash/HusnikU/Cong/bam/ACAB.bam -out ACAB -t 32 -ref /apps/unit/BioinfoUgrp/DB/diamondDB/ncbi/238/nr.dmnd --bin` But I got the following error:...

Run GALBA with external miniprot run

5

Hello, I am wondering if it is possible to run GALBA with pre-computed miniprot alignments, or make GALBA accept multiple protein files and call miniprot for these files one by...

Hello, I am using EDTA+panEDTA to annotate genomes of 40 related species. I annotated each genome individually with EDTA v2.2.0 and generated a panEDTA library. Then for each genome, I...