ntromas
ntromas
Hi, I hope this is not redundant with another issue. It seems that there might be an issue with passing check point 1 and I am not sure about the...
Hi Ben, I have to analyze >20 runs and for each run I used (separately) dada2. I would like to combine them using mergeSequenceTables(). Many times, the different persons that...
Hi, I just got this error with 2 different run and I wonder if there is anything to correct this. Here is the error: NOTE: Process `virsorter2_wf:virsorter2 (1)` terminated with...
Hi, I used VirSorter v2.1 on contigs from environmental metagenomes. I selected potential viral contigs with score >0.8. I then verify completeness with checkV. Several potential viral contigs where classified...
Hi, I got this error during VirSorter2 run (environmental metagenomes contigs): virsorter run -i sequences_cdhit_metagenomes.fasta -w VIRSORTERvers2 -j 4 all -d /home/nico/miniconda3/envs/virsorter2/db/db [2020-12-17 18:17 INFO] Using /home/nico/miniconda3/envs/virsorter2/lib/python3.8/site-packages/virsorter/template-config.yaml as config template...
Hi, Thanks for this pipeline! I met that issue during the installation and I wonder if that could impact the installation. _conda env create -f PopCOGenT.yml Collecting package metadata (repodata.json):...
Hi! Is there a way to filter output based on minimum horizontal coverage? To validate that the reads covered most of the genome (instead of one part if the MAGs...
Hi, Thanks for the cool pipeline! I wonder if there is a way to count (and/or remove) the reads that map to multiple locations. I've seen that option (--exclude-supplementary) but...
Hi! My question might be naive but I wonder if there is a simple way to include the position that would have ref_freq = 1 to separate these to the...
Hi Daniel, I am using SMETANA with a small community (models from the last version of carveme, without gapfilling). My output always change for -d which I think is linked...