senukobla

Error with virsorter2

8

I tried running virsorter2 but got the message below. Any ideas how I can resolve this [2021-02-13 22:33 INFO] conig file written to /fs/ess/PES0842/Data/senu/config.yaml [2021-02-13 22:33 INFO] Executing: snakemake --snakefile...

Bad fast5 warning . How to I fix ? code I run and output attached ( r10 chemistry)

1

f5c call-methylation -t 8 -r BC9to16.fastq -b BC9to16decomfast5.sorted.bam -g cdiffstr22457.fasta > BC9to16b.tsv [meth_main::INFO] Default methylation tsv output format is changed from f5c v0.7 onwards to match latest nanopolish output. Set...

extract reads error

1

Hi, I am trying to use the extract read tool to select out some reads but I am getting this error "ValueError: invalid literal for int() with base 10: 'taxonomy_lvl...

Code.

5

Thanks for this pipeline . I love it . 2 questions 1) how can one retrieve the code? ( want to see code that the GUI run ) 2) It...

compress_fast5 command

1

Hi , For some reason , I am getting this error bash: compress_fast5: command not found... Any thoughts on now to resolve Senu

only one object from and group of 2 is plotted

1

Thanks for this useful tool. I tried plotting methylation patterns for a gene from two different samples but when I plot the graphs it outputs the figure for only one...