fanxinping

Accucopy will fail if the sample is too noisy or undergo a little copy number variations. Can you share the png file `plot.tre.png` in the result fold? This file will...

In the TRE plot, one major peak represents one major event of copy number variations, and the peak near 1.0 represents copy number 2. There is one major peak in...

You can use another variant calling program in theory, but it's a little difficult. After the SNP calling, `het_snp_select` step in Accucopy will select the heterozygous SNPs based on the...

@pblaney Hello, Can you pack and upload the dir `{OUTPUT_DIR}/pyflow.data` or send it to my email([email protected])? Which container you have used, Docker or Singularity? How do you implement Accucopy into...

Hi @pblaney I have checked the zipped file of the `{OUTPUT_DIR}/pyflow.data`. The file `pyflow.data/logs/pyflow_tasks_stderr_log.txt` doesn't contain any error message and shows that Accucopy run successfully. The file `pyflow.data/logs/pyflow_tasks_stdout_log.txt` contains the...

@pblaney It's very strange. I have tested Accucopy in my SLURM env, and it worked well. The shell script is `test.sh`: ```bash #!/bin/sh singularity exec --bind /y accucopy_latest.sif /usr/local/Accucopy/main.py -c...

Sorry to reply so late. You can try it on long read data. Accuopy will work in theory with default parameters.

@naity2 Hi, Can you provide us with the log folder (under the folder `pyflow.data`)?

@naity2 An error occurred when executing `normalize` subcommand according to the information you provided, but I cannot find the detailed reason why this error occurred with the partial logs. Can...

We saw this in the pyflow_tasks_stdout_log.txt, which suggests all reads in your bam fail to pass our filters: > Reading in genome coverage from "/home/WUR/yu052/DogWUR108_rh.dedup_st.reA.bam" ... > > Reading and...