Nitin123-4
Nitin123-4
Hi , I am getting following error while installing salmon: [ 86%] Linking CXX executable unitTests ../../external/install/lib/libstaden-read.a(libstaden_read_la-open_trace_file.o): In function `find_file_url': open_trace_file.c:(.text+0xd30): warning: the use of `tempnam' is dangerous, better use...
Is there any formula to get below from Manta VCF: Alt_Depth BP1_Depth BP2_Depth Total_Depth VAF Example Manta VCF: chr2 | 42522715 | MantaBND:1695:1:5:0:0:0:1 | C | C]chr2:29447256] | . |...
Hi I am running pathfindR with default parameters with 10 iterations and it is taking 10 n_processes as n_processes was set to NULL. Can you please help how many CPUS...
Hi Team, I did the required settings for funannotate to use mysql i.e. https://github.com/PASApipeline/PASApipeline/wiki/setting-up-pasa-mysql. It is running fine with 12 cpus. funannotate update -i Genome_funannotate_train/ --cpus 12 --pasa_db mysql Any...
Hi team, I can see funannotate clean takes a lot of time, no cpu option to make it faster? Thanks.
Hi team, As we know that funannoate runs with multiple cpus, but a lot of steps in between runs in parallel. A lot of times it gives memory related errors....
Hi, I am trying to generate a synteny/orthology figure for a family of genes among 4 species of interest. The genes within each of these species code for proteins belonging...
Is it possible to plot fusions from other tools like: fusioncatcher, puzzly, squid etc.?
I am running it in slurm with : srun --nodes=1 --cpus-per-task=20 --ntasks-per-node=1 --mem=30000M methratio.py -I --np 10 --mem 5000 -o SampleName_methratio.txt -d $genome_fasta bam.bam > SampleName.bam_mr.log but I am getting...
Funannotate final gff3 has only one transcript information per gene. It doesn't provide alternative splicing/isoforms in the gff file?